RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep']
Forking launchpad-buildd slave process...
Kernel version: Linux aatxe 3.2.0-75-generic #110-Ubuntu SMP Tue Dec 16 19:11:55 UTC 2014 x86_64
Buildd toolchain package versions: launchpad-buildd_126 python-lpbuildd_126 bzr_2.5.1-0ubuntu2 dpkg-dev_1.16.1.2ubuntu7.5.
Syncing the system clock with the buildd NTP service...
21 Feb 02:17:02 ntpdate[18090]: adjust time server 10.211.37.1 offset -0.000041 sec
RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-6927507', '/home/buildd/filecache-default/a665269cbd0fd566602516993cd02903b7df1cae']
Unpacking chroot for build PACKAGEBUILD-6927507
RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-6927507']
Mounting chroot for build PACKAGEBUILD-6927507
RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-6927507', 'deb http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu vivid main', 'deb http://ftpmaster.internal/ubuntu vivid main restricted universe multiverse']
Overriding sources.list in build-PACKAGEBUILD-6927507
RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-6927507', 'amd64']
Updating debian chroot for build PACKAGEBUILD-6927507
Ign http://ppa.launchpad.net vivid InRelease
Ign http://archive-team.internal vivid InRelease
Get:1 http://ppa.launchpad.net vivid Release.gpg [316 B]
Ign http://ftpmaster.internal vivid InRelease
Get:2 http://ftpmaster.internal vivid Release.gpg [933 B]
Get:3 http://ppa.launchpad.net vivid Release [15.1 kB]
Get:4 http://ftpmaster.internal vivid Release [215 kB]
Ign http://archive-team.internal vivid Release.gpg
Get:5 http://archive-team.internal vivid Release [728 B]
Ign http://ppa.launchpad.net vivid Release
Get:6 http://ppa.launchpad.net vivid/main amd64 Packages [22.2 kB]
Get:7 http://ppa.launchpad.net vivid/main Translation-en [9969 B]
Get:8 http://ftpmaster.internal vivid/main amd64 Packages [1358 kB]
Get:9 http://archive-team.internal vivid/main amd64 Packages
Ign http://archive-team.internal vivid/main Translation-en
Get:10 http://ftpmaster.internal vivid/restricted amd64 Packages [16.0 kB]
Get:11 http://ftpmaster.internal vivid/universe amd64 Packages [6483 kB]
Get:12 http://ftpmaster.internal vivid/multiverse amd64 Packages [133 kB]
Get:13 http://ftpmaster.internal vivid/main Translation-en [782 kB]
Get:14 http://ftpmaster.internal vivid/multiverse Translation-en [103 kB]
Get:15 http://ftpmaster.internal vivid/restricted Translation-en [4395 B]
Get:16 http://ftpmaster.internal vivid/universe Translation-en [4458 kB]
Fetched 13.6 MB in 4s (2953 kB/s)
Reading package lists...
W: GPG error: http://ppa.launchpad.net vivid Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 1E9377A2BA9EF27F
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
  g++-4.9 libgcrypt11 libisl10 libstdc++-4.9-dev libsystemd-journal0
Use 'apt-get autoremove' to remove them.
The following NEW packages will be installed:
  cpp-5 g++-5 gcc-5 gcc-5-base libasan2 libcc1-0 libgcc-5-dev libisl13
  libstdc++-5-dev libsystemd0
The following packages will be upgraded:
  apt apt-transport-https base-files base-passwd bash binutils bsdutils
  busybox-initramfs bzip2 ca-certificates coreutils cpio cpp cpp-4.9 debconf
  dpkg dpkg-dev e2fslibs e2fsprogs fakeroot findutils g++ g++-4.9 gcc gcc-4.9
  gcc-4.9-base gnupg gpgv grep gzip ifupdown init-system-helpers
  initramfs-tools initramfs-tools-bin initscripts libacl1 libapt-pkg4.12
  libasan1 libasn1-8-heimdal libatomic1 libblkid1 libbz2-1.0 libc-bin
  libc-dev-bin libc6 libc6-dev libcap2 libcgmanager0 libcilkrts5 libcloog-isl4
  libcomerr2 libcurl3-gnutls libdb5.3 libdbus-1-3 libdebconfclient0
  libdpkg-perl libdrm2 libfakeroot libffi6 libgcc-4.9-dev libgcc1 libgcrypt20
  libgdbm3 libgmp10 libgnutls-deb0-28 libgomp1 libgpg-error0 libgssapi-krb5-2
  libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal
  libheimntlm0-heimdal libhogweed2 libhx509-5-heimdal libitm1 libjson-c2
  libjson0 libk5crypto3 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblsan0
  libmount1 libmpc3 libmpfr4 libnettle4 libnih-dbus1 libnih1 libp11-kit0
  libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre3
  libplymouth4 libprocps3 libquadmath0 libroken18-heimdal librtmp1 libsasl2-2
  libsasl2-modules-db libselinux1 libsemanage-common libsemanage1 libslang2
  libsmartcols1 libsqlite3-0 libss2 libssl1.0.0 libstdc++-4.9-dev libstdc++6
  libtasn1-6 libtsan0 libubsan0 libudev1 libusb-0.1-4 libuuid1
  libwind0-heimdal linux-libc-dev login make mount mountall multiarch-support
  openssl passwd patch perl perl-base perl-modules plymouth procps sysv-rc
  sysvinit-utils tzdata udev upstart upstart-bin util-linux zlib1g
140 upgraded, 10 newly installed, 0 to remove and 0 not upgraded.
Need to get 94.9 MB of archives.
After this operation, 96.7 MB of additional disk space will be used.
WARNING: The following packages cannot be authenticated!
  gcc-5-base libgcc1 libstdc++6 libitm1 libgomp1 liblsan0 libubsan0
  libcilkrts5 libatomic1 libtsan0 libquadmath0 libasan2 libcc1-0 cpp-5 cpp
  libgcc-5-dev gcc-5 gcc libstdc++-5-dev g++-5 g++
Authentication warning overridden.
Get:1 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main gcc-5-base amd64 5-20150205-0ubuntu11 [14.7 kB]
Get:2 http://ftpmaster.internal/ubuntu/ vivid/main base-files amd64 7.2ubuntu8 [63.5 kB]
Get:3 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libgcc1 amd64 1:5-20150205-0ubuntu11 [39.4 kB]
Get:4 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libstdc++6 amd64 5-20150205-0ubuntu11 [358 kB]
Get:5 http://ftpmaster.internal/ubuntu/ vivid/main bash amd64 4.3-11ubuntu2 [581 kB]
Get:6 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libitm1 amd64 5-20150205-0ubuntu11 [27.7 kB]
Get:7 http://ftpmaster.internal/ubuntu/ vivid/main libsystemd0 amd64 219-1ubuntu1 [75.8 kB]
Get:8 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libgomp1 amd64 5-20150205-0ubuntu11 [54.5 kB]
Get:9 http://ftpmaster.internal/ubuntu/ vivid/main bsdutils amd64 1:2.25.2-4ubuntu1 [45.1 kB]
Get:10 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main liblsan0 amd64 5-20150205-0ubuntu11 [109 kB]
Get:11 http://ftpmaster.internal/ubuntu/ vivid/main coreutils amd64 8.23-3ubuntu1 [1137 kB]
Get:12 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libubsan0 amd64 5-20150205-0ubuntu11 [99.5 kB]
Get:13 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libcilkrts5 amd64 5-20150205-0ubuntu11 [40.6 kB]
Get:14 http://ftpmaster.internal/ubuntu/ vivid/main dpkg amd64 1.17.23ubuntu1 [2156 kB]
Get:15 http://ftpmaster.internal/ubuntu/ vivid/main libcap2 amd64 1:2.24-6 [12.8 kB]
Get:16 http://ftpmaster.internal/ubuntu/ vivid/main libc-bin amd64 2.19-15ubuntu1 [1162 kB]
Get:17 http://ftpmaster.internal/ubuntu/ vivid/main libdbus-1-3 amd64 1.8.12-1ubuntu1 [147 kB]
Get:18 http://ftpmaster.internal/ubuntu/ vivid/main libnih-dbus1 amd64 1.0.3-4ubuntu27 [14.8 kB]
Get:19 http://ftpmaster.internal/ubuntu/ vivid/main libnih1 amd64 1.0.3-4ubuntu27 [49.8 kB]
Get:20 http://ftpmaster.internal/ubuntu/ vivid/main libcgmanager0 amd64 0.36-2 [35.3 kB]
Get:21 http://ftpmaster.internal/ubuntu/ vivid/main libjson-c2 amd64 0.11-4ubuntu2 [22.3 kB]
Get:22 http://ftpmaster.internal/ubuntu/ vivid/main plymouth amd64 0.9.0-0ubuntu9 [103 kB]
Get:23 http://ftpmaster.internal/ubuntu/ vivid/main libplymouth4 amd64 0.9.0-0ubuntu9 [85.8 kB]
Get:24 http://ftpmaster.internal/ubuntu/ vivid/main sysvinit-utils amd64 2.88dsf-53.2ubuntu9 [41.0 kB]
Get:25 http://ftpmaster.internal/ubuntu/ vivid/main upstart amd64 1.13.2-0ubuntu7 [82.0 kB]
Get:26 http://ftpmaster.internal/ubuntu/ vivid/main upstart-bin amd64 1.13.2-0ubuntu7 [364 kB]
Get:27 http://ftpmaster.internal/ubuntu/ vivid/main initramfs-tools all 0.103ubuntu12 [45.1 kB]
Get:28 http://ftpmaster.internal/ubuntu/ vivid/main initramfs-tools-bin amd64 0.103ubuntu12 [8884 B]
Get:29 http://ftpmaster.internal/ubuntu/ vivid/main busybox-initramfs amd64 1:1.22.0-9ubuntu1 [176 kB]
Get:30 http://ftpmaster.internal/ubuntu/ vivid/main cpio amd64 2.11+dfsg-4ubuntu1 [74.2 kB]
Get:31 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libatomic1 amd64 5-20150205-0ubuntu11 [9142 B]
Get:32 http://ftpmaster.internal/ubuntu/ vivid/main findutils amd64 4.4.2-9build1 [275 kB]
Get:33 http://ftpmaster.internal/ubuntu/ vivid/main libpcre3 amd64 2:8.35-3.3ubuntu1 [221 kB]
Get:34 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libtsan0 amd64 5-20150205-0ubuntu11 [252 kB]
Get:35 http://ftpmaster.internal/ubuntu/ vivid/main libselinux1 amd64 2.3-2 [59.8 kB]
Get:36 http://ftpmaster.internal/ubuntu/ vivid/main mountall amd64 2.54ubuntu1 [56.8 kB]
Get:37 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libquadmath0 amd64 5-20150205-0ubuntu11 [132 kB]
Get:38 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libasan2 amd64 5-20150205-0ubuntu11 [270 kB]
Get:39 http://ftpmaster.internal/ubuntu/ vivid/main debconf all 1.5.55ubuntu2 [143 kB]
Get:40 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libcc1-0 amd64 5-20150205-0ubuntu11 [31.0 kB]
Get:41 http://ftpmaster.internal/ubuntu/ vivid/main sysv-rc all 2.88dsf-53.2ubuntu9 [37.0 kB]
Get:42 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main cpp-5 amd64 5-20150205-0ubuntu11 [5903 kB]
Get:43 http://ftpmaster.internal/ubuntu/ vivid/main mount amd64 2.25.2-4ubuntu1 [117 kB]
Get:44 http://ftpmaster.internal/ubuntu/ vivid/main initscripts amd64 2.88dsf-53.2ubuntu9 [27.8 kB]
Get:45 http://ftpmaster.internal/ubuntu/ vivid/main tzdata all 2015a-1 [181 kB]
Get:46 http://ftpmaster.internal/ubuntu/ vivid/main util-linux amd64 2.25.2-4ubuntu1 [798 kB]
Get:47 http://ftpmaster.internal/ubuntu/ vivid/main perl amd64 5.20.1-5 [2632 kB]
Get:48 http://ftpmaster.internal/ubuntu/ vivid/main perl-base amd64 5.20.1-5 [1222 kB]
Get:49 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main cpp amd64 4:5-0ubuntu8 [27.4 kB]
Get:50 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libgcc-5-dev amd64 5-20150205-0ubuntu11 [2229 kB]
Get:51 http://ftpmaster.internal/ubuntu/ vivid/main perl-modules all 5.20.1-5 [2493 kB]
Get:52 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main gcc-5 amd64 5-20150205-0ubuntu11 [6362 kB]
Get:53 http://ftpmaster.internal/ubuntu/ vivid/main bzip2 amd64 1.0.6-7 [32.7 kB]
Get:54 http://ftpmaster.internal/ubuntu/ vivid/main libbz2-1.0 amd64 1.0.6-7 [30.7 kB]
Get:55 http://ftpmaster.internal/ubuntu/ vivid/main libdb5.3 amd64 5.3.28-9 [670 kB]
Get:56 http://ftpmaster.internal/ubuntu/ vivid/main libgdbm3 amd64 1.8.3-13.1 [16.9 kB]
Get:57 http://ftpmaster.internal/ubuntu/ vivid/main zlib1g amd64 1:1.2.8.dfsg-2ubuntu1 [52.4 kB]
Get:58 http://ftpmaster.internal/ubuntu/ vivid/main init-system-helpers all 1.22ubuntu2 [13.7 kB]
Get:59 http://ftpmaster.internal/ubuntu/ vivid/main libdrm2 amd64 2.4.58-2 [23.3 kB]
Get:60 http://ftpmaster.internal/ubuntu/ vivid/main libacl1 amd64 2.2.52-2 [16.3 kB]
Get:61 http://ftpmaster.internal/ubuntu/ vivid/main libpam0g amd64 1.1.8-3.1ubuntu2 [58.0 kB]
Get:62 http://ftpmaster.internal/ubuntu/ vivid/main libsemanage-common all 2.3-1build1 [6302 B]
Get:63 http://ftpmaster.internal/ubuntu/ vivid/main libsemanage1 amd64 2.3-1build1 [71.6 kB]
Get:64 http://ftpmaster.internal/ubuntu/ vivid/main libpam-modules-bin amd64 1.1.8-3.1ubuntu2 [36.6 kB]
Get:65 http://ftpmaster.internal/ubuntu/ vivid/main libpam-modules amd64 1.1.8-3.1ubuntu2 [245 kB]
Get:66 http://ftpmaster.internal/ubuntu/ vivid/main passwd amd64 1:4.1.5.1-1.1ubuntu3 [760 kB]
Get:67 http://ftpmaster.internal/ubuntu/ vivid/main libuuid1 amd64 2.25.2-4ubuntu1 [15.5 kB]
Get:68 http://ftpmaster.internal/ubuntu/ vivid/main libblkid1 amd64 2.25.2-4ubuntu1 [104 kB]
Get:69 http://ftpmaster.internal/ubuntu/ vivid/main libprocps3 amd64 1:3.3.9-1ubuntu8 [31.7 kB]
Get:70 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main gcc amd64 4:5-0ubuntu8 [5348 B]
Get:71 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main libstdc++-5-dev amd64 5-20150205-0ubuntu11 [1287 kB]
Get:72 http://ftpmaster.internal/ubuntu/ vivid/main procps amd64 1:3.3.9-1ubuntu8 [212 kB]
Get:73 http://ftpmaster.internal/ubuntu/ vivid/main udev amd64 219-1ubuntu1 [924 kB]
Get:74 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main g++-5 amd64 5-20150205-0ubuntu11 [6329 kB]
Get:75 http://ftpmaster.internal/ubuntu/ vivid/main libudev1 amd64 219-1ubuntu1 [43.0 kB]
Get:76 http://ftpmaster.internal/ubuntu/ vivid/main libjson0 amd64 0.11-4ubuntu2 [1136 B]
Get:77 http://ftpmaster.internal/ubuntu/ vivid/main ifupdown amd64 0.7.48.1ubuntu6 [51.7 kB]
Get:78 http://ftpmaster.internal/ubuntu/ vivid/main libc6-dev amd64 2.19-15ubuntu1 [1913 kB]
Get:79 http://ftpmaster.internal/ubuntu/ vivid/main libc-dev-bin amd64 2.19-15ubuntu1 [67.9 kB]
Get:80 http://ftpmaster.internal/ubuntu/ vivid/main linux-libc-dev amd64 3.18.0-13.14 [775 kB]
Get:81 http://ftpmaster.internal/ubuntu/ vivid/main libc6 amd64 2.19-15ubuntu1 [4749 kB]
Get:82 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu/ vivid/main g++ amd64 4:5-0ubuntu8 [1616 B]
Get:83 http://ftpmaster.internal/ubuntu/ vivid/main e2fslibs amd64 1.42.12-1ubuntu2 [189 kB]
Get:84 http://ftpmaster.internal/ubuntu/ vivid/main e2fsprogs amd64 1.42.12-1ubuntu2 [755 kB]
Get:85 http://ftpmaster.internal/ubuntu/ vivid/main grep amd64 2.20-4.1 [146 kB]
Get:86 http://ftpmaster.internal/ubuntu/ vivid/main gzip amd64 1.6-4ubuntu1 [87.4 kB]
Get:87 http://ftpmaster.internal/ubuntu/ vivid/main login amd64 1:4.1.5.1-1.1ubuntu3 [302 kB]
Get:88 http://ftpmaster.internal/ubuntu/ vivid/main libapt-pkg4.12 amd64 1.0.9.3ubuntu1 [672 kB]
Get:89 http://ftpmaster.internal/ubuntu/ vivid/main gpgv amd64 1.4.18-6ubuntu1 [164 kB]
Get:90 http://ftpmaster.internal/ubuntu/ vivid/main libusb-0.1-4 amd64 2:0.1.12-25 [16.6 kB]
Get:91 http://ftpmaster.internal/ubuntu/ vivid/main gnupg amd64 1.4.18-6ubuntu1 [623 kB]
Get:92 http://ftpmaster.internal/ubuntu/ vivid/main apt amd64 1.0.9.3ubuntu1 [998 kB]
Get:93 http://ftpmaster.internal/ubuntu/ vivid/main libdebconfclient0 amd64 0.192ubuntu1 [6310 B]
Get:94 http://ftpmaster.internal/ubuntu/ vivid/main base-passwd amd64 3.5.37 [56.4 kB]
Get:95 http://ftpmaster.internal/ubuntu/ vivid/main libcomerr2 amd64 1.42.12-1ubuntu2 [65.3 kB]
Get:96 http://ftpmaster.internal/ubuntu/ vivid/main libgpg-error0 amd64 1.17-3 [32.4 kB]
Get:97 http://ftpmaster.internal/ubuntu/ vivid/main libgcrypt20 amd64 1.6.2-4ubuntu1 [334 kB]
Get:98 http://ftpmaster.internal/ubuntu/ vivid/main libmount1 amd64 2.25.2-4ubuntu1 [111 kB]
Get:99 http://ftpmaster.internal/ubuntu/ vivid/main libslang2 amd64 2.3.0-2ubuntu1 [413 kB]
Get:100 http://ftpmaster.internal/ubuntu/ vivid/main libsmartcols1 amd64 2.25.2-4ubuntu1 [60.6 kB]
Get:101 http://ftpmaster.internal/ubuntu/ vivid/main libss2 amd64 1.42.12-1ubuntu2 [69.6 kB]
Get:102 http://ftpmaster.internal/ubuntu/ vivid/main libffi6 amd64 3.2.1-1 [17.7 kB]
Get:103 http://ftpmaster.internal/ubuntu/ vivid/main libgmp10 amd64 2:6.0.0+dfsg-6 [240 kB]
Get:104 http://ftpmaster.internal/ubuntu/ vivid/main libnettle4 amd64 2.7.1-5 [107 kB]
Get:105 http://ftpmaster.internal/ubuntu/ vivid/main libhogweed2 amd64 2.7.1-5 [125 kB]
Get:106 http://ftpmaster.internal/ubuntu/ vivid/main libp11-kit0 amd64 0.20.7-1 [77.1 kB]
Get:107 http://ftpmaster.internal/ubuntu/ vivid/main libtasn1-6 amd64 4.2-2 [42.1 kB]
Get:108 http://ftpmaster.internal/ubuntu/ vivid/main libgnutls-deb0-28 amd64 3.3.8-3ubuntu2 [516 kB]
Get:109 http://ftpmaster.internal/ubuntu/ vivid/main libsqlite3-0 amd64 3.8.7.4-1 [371 kB]
Get:110 http://ftpmaster.internal/ubuntu/ vivid/main libssl1.0.0 amd64 1.0.1f-1ubuntu10 [850 kB]
Get:111 http://ftpmaster.internal/ubuntu/ vivid/main libroken18-heimdal amd64 1.6~rc2+dfsg-9 [41.2 kB]
Get:112 http://ftpmaster.internal/ubuntu/ vivid/main libasn1-8-heimdal amd64 1.6~rc2+dfsg-9 [177 kB]
Get:113 http://ftpmaster.internal/ubuntu/ vivid/main libgssapi-krb5-2 amd64 1.12.1+dfsg-18 [119 kB]
Get:114 http://ftpmaster.internal/ubuntu/ vivid/main libkrb5-3 amd64 1.12.1+dfsg-18 [270 kB]
Get:115 http://ftpmaster.internal/ubuntu/ vivid/main libkrb5support0 amd64 1.12.1+dfsg-18 [30.3 kB]
Get:116 http://ftpmaster.internal/ubuntu/ vivid/main libk5crypto3 amd64 1.12.1+dfsg-18 [83.3 kB]
Get:117 http://ftpmaster.internal/ubuntu/ vivid/main librtmp1 amd64 2.4+20131018.git79459a2-5 [54.7 kB]
Get:118 http://ftpmaster.internal/ubuntu/ vivid/main libcurl3-gnutls amd64 7.38.0-3ubuntu2 [172 kB]
Get:119 http://ftpmaster.internal/ubuntu/ vivid/main libhcrypto4-heimdal amd64 1.6~rc2+dfsg-9 [86.1 kB]
Get:120 http://ftpmaster.internal/ubuntu/ vivid/main libheimbase1-heimdal amd64 1.6~rc2+dfsg-9 [29.9 kB]
Get:121 http://ftpmaster.internal/ubuntu/ vivid/main libwind0-heimdal amd64 1.6~rc2+dfsg-9 [48.3 kB]
Get:122 http://ftpmaster.internal/ubuntu/ vivid/main libhx509-5-heimdal amd64 1.6~rc2+dfsg-9 [107 kB]
Get:123 http://ftpmaster.internal/ubuntu/ vivid/main libkrb5-26-heimdal amd64 1.6~rc2+dfsg-9 [203 kB]
Get:124 http://ftpmaster.internal/ubuntu/ vivid/main libheimntlm0-heimdal amd64 1.6~rc2+dfsg-9 [15.2 kB]
Get:125 http://ftpmaster.internal/ubuntu/ vivid/main libgssapi3-heimdal amd64 1.6~rc2+dfsg-9 [94.6 kB]
Get:126 http://ftpmaster.internal/ubuntu/ vivid/main libsasl2-modules-db amd64 2.1.26.dfsg1-12 [14.6 kB]
Get:127 http://ftpmaster.internal/ubuntu/ vivid/main libsasl2-2 amd64 2.1.26.dfsg1-12 [49.5 kB]
Get:128 http://ftpmaster.internal/ubuntu/ vivid/main libisl13 amd64 0.14-1 [456 kB]
Get:129 http://ftpmaster.internal/ubuntu/ vivid/main libcloog-isl4 amd64 0.18.2-3 [60.4 kB]
Get:130 http://ftpmaster.internal/ubuntu/ vivid/main libmpfr4 amd64 3.1.2-3 [184 kB]
Get:131 http://ftpmaster.internal/ubuntu/ vivid/main libmpc3 amd64 1.0.2-2 [39.6 kB]
Get:132 http://ftpmaster.internal/ubuntu/ vivid/main g++-4.9 amd64 4.9.2-10ubuntu5 [17.5 MB]
Get:133 http://ftpmaster.internal/ubuntu/ vivid/main gcc-4.9 amd64 4.9.2-10ubuntu5 [5649 kB]
Get:134 http://ftpmaster.internal/ubuntu/ vivid/main cpp-4.9 amd64 4.9.2-10ubuntu5 [5023 kB]
Get:135 http://ftpmaster.internal/ubuntu/ vivid/main binutils amd64 2.25-2ubuntu2 [2207 kB]
Get:136 http://ftpmaster.internal/ubuntu/ vivid/main libstdc++-4.9-dev amd64 4.9.2-10ubuntu5 [1126 kB]
Get:137 http://ftpmaster.internal/ubuntu/ vivid/main libgcc-4.9-dev amd64 4.9.2-10ubuntu5 [2074 kB]
Get:138 http://ftpmaster.internal/ubuntu/ vivid/main libasan1 amd64 4.9.2-10ubuntu5 [198 kB]
Get:139 http://ftpmaster.internal/ubuntu/ vivid/main gcc-4.9-base amd64 4.9.2-10ubuntu5 [15.7 kB]
Get:140 http://ftpmaster.internal/ubuntu/ vivid/main libpam-runtime all 1.1.8-3.1ubuntu2 [39.8 kB]
Get:141 http://ftpmaster.internal/ubuntu/ vivid/main multiarch-support amd64 2.19-15ubuntu1 [7284 B]
Get:142 http://ftpmaster.internal/ubuntu/ vivid/main apt-transport-https amd64 1.0.9.3ubuntu1 [27.1 kB]
Get:143 http://ftpmaster.internal/ubuntu/ vivid/main openssl amd64 1.0.1f-1ubuntu10 [492 kB]
Get:144 http://ftpmaster.internal/ubuntu/ vivid/main ca-certificates all 20141019 [192 kB]
Get:145 http://ftpmaster.internal/ubuntu/ vivid/main dpkg-dev all 1.17.23ubuntu1 [762 kB]
Get:146 http://ftpmaster.internal/ubuntu/ vivid/main libdpkg-perl all 1.17.23ubuntu1 [189 kB]
Get:147 http://ftpmaster.internal/ubuntu/ vivid/main patch amd64 2.7.4-2 [89.1 kB]
Get:148 http://ftpmaster.internal/ubuntu/ vivid/main make amd64 4.0-8.1 [149 kB]
Get:149 http://ftpmaster.internal/ubuntu/ vivid/main libfakeroot amd64 1.20.2-1ubuntu1 [25.5 kB]
Get:150 http://ftpmaster.internal/ubuntu/ vivid/main fakeroot amd64 1.20.2-1ubuntu1 [61.8 kB]
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update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
invoke-rc.d: policy-rc.d denied execution of start.
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Updating certificates in /etc/ssl/certs... 10 added, 5 removed; done.
Running hooks in /etc/ca-certificates/update.d....done.
RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-6927507', 'amd64', 'vivid', '--nolog', '--batch', '--archive=ubuntu', '--dist=vivid', '-A', '--purpose=COPY', '--architecture=amd64', '--comp=universe', 'staden_2.0.0+b10-1.1.dsc']
Initiating build PACKAGEBUILD-6927507 with 8 jobs across 8 processor cores.
Kernel reported to sbuild: 3.2.0-75-generic #110-Ubuntu SMP Tue Dec 16 19:11:55 UTC 2014 x86_64
Automatic build of staden_2.0.0+b10-1.1 on aatxe by sbuild/amd64 1.170.5
Build started at 20150221-0217
******************************************************************************
staden_2.0.0+b10-1.1.dsc exists in cwd
** Using build dependencies supplied by package:
Build-Depends: debhelper (>= 9), libstaden-read-dev (>= 1.13.1), itcl3-dev, itk3-dev, zlib1g-dev, libbz2-dev, liblzma-dev, tcl-dev, tk-dev, tklib, libpng-dev, libncurses5-dev, iwidgets4, libcurl4-openssl-dev
Checking for already installed source dependencies...
debhelper: missing
libstaden-read-dev: missing
itcl3-dev: missing
itk3-dev: missing
zlib1g-dev: missing
libbz2-dev: missing
liblzma-dev: missing
tcl-dev: missing
tk-dev: missing
tklib: missing
libpng-dev: missing
libncurses5-dev: missing
iwidgets4: missing
libcurl4-openssl-dev: missing
Checking for source dependency conflicts...
  /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper libstaden-read-dev itcl3-dev itk3-dev zlib1g-dev libbz2-dev liblzma-dev tcl-dev tk-dev tklib libpng-dev libncurses5-dev iwidgets4 libcurl4-openssl-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
  g++-4.9 libgcrypt11 libisl10 libstdc++-4.9-dev libsystemd-journal0
Use 'apt-get autoremove' to remove them.
The following extra packages will be installed:
  bsdmainutils dh-apparmor file fontconfig-config fonts-dejavu-core gettext
  gettext-base groff-base intltool-debian itcl3 itk3 libasprintf0c2 libcroco3
  libcurl3 libexpat1 libexpat1-dev libfontconfig1 libfontconfig1-dev
  libfreetype6 libfreetype6-dev libglib2.0-0 libice-dev libice6 libicu52
  libmagic1 libpipeline1 libpthread-stubs0-dev libsm-dev libsm6
  libstaden-read1 libtcl8.6 libtinfo-dev libtk8.6 libunistring0 libx11-6
  libx11-data libx11-dev libxau-dev libxau6 libxcb1 libxcb1-dev libxdmcp-dev
  libxdmcp6 libxext-dev libxext6 libxft-dev libxft2 libxml2 libxrender-dev
  libxrender1 libxss-dev libxss1 libxt-dev libxt6 man-db pkg-config po-debconf
  tcl tcl8.6 tcl8.6-dev tk tk8.6 tk8.6-dev ucf x11-common x11proto-core-dev
  x11proto-input-dev x11proto-kb-dev x11proto-render-dev
  x11proto-scrnsaver-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev
Suggested packages:
  wamerican wordlist whois vacation dh-make apparmor-easyprof gettext-doc
  groff itcl3-doc itk3-doc iwidgets4-doc libcurl4-doc libcurl3-dbg
  libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssl-dev libice-doc
  liblzma-doc ncurses-doc libsm-doc libxcb-doc libxext-doc libxt-doc less
  www-browser libmail-box-perl tcl-doc tcl-tclreadline tcl8.6-doc tk-doc
  tk8.6-doc
Recommended packages:
  curl wget lynx-cur libasprintf-dev libgettextpo-dev bzip2-doc
  libglib2.0-data shared-mime-info xdg-user-dirs libx11-doc xml-core
  libmail-sendmail-perl xterm x-terminal-emulator tcllib
The following NEW packages will be installed:
  bsdmainutils debhelper dh-apparmor file fontconfig-config fonts-dejavu-core
  gettext gettext-base groff-base intltool-debian itcl3 itcl3-dev itk3
  itk3-dev iwidgets4 libasprintf0c2 libbz2-dev libcroco3 libcurl3
  libcurl4-openssl-dev libexpat1 libexpat1-dev libfontconfig1
  libfontconfig1-dev libfreetype6 libfreetype6-dev libglib2.0-0 libice-dev
  libice6 libicu52 liblzma-dev libmagic1 libncurses5-dev libpipeline1
  libpng12-dev libpthread-stubs0-dev libsm-dev libsm6 libstaden-read-dev
  libstaden-read1 libtcl8.6 libtinfo-dev libtk8.6 libunistring0 libx11-6
  libx11-data libx11-dev libxau-dev libxau6 libxcb1 libxcb1-dev libxdmcp-dev
  libxdmcp6 libxext-dev libxext6 libxft-dev libxft2 libxml2 libxrender-dev
  libxrender1 libxss-dev libxss1 libxt-dev libxt6 man-db pkg-config po-debconf
  tcl tcl-dev tcl8.6 tcl8.6-dev tk tk-dev tk8.6 tk8.6-dev tklib ucf x11-common
  x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-render-dev
  x11proto-scrnsaver-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev
  zlib1g-dev
0 upgraded, 87 newly installed, 0 to remove and 0 not upgraded.
Need to get 26.8 MB of archives.
After this operation, 108 MB of additional disk space will be used.
Get:1 http://ftpmaster.internal/ubuntu/ vivid/main libexpat1 amd64 2.1.0-6ubuntu1 [70.6 kB]
Get:2 http://ftpmaster.internal/ubuntu/ vivid/main libmagic1 amd64 1:5.20-1ubuntu2 [208 kB]
Get:3 http://ftpmaster.internal/ubuntu/ vivid/main libasprintf0c2 amd64 0.19.2-2ubuntu1 [6296 B]
Get:4 http://ftpmaster.internal/ubuntu/ vivid/main libglib2.0-0 amd64 2.43.4-1 [1098 kB]
Get:5 http://ftpmaster.internal/ubuntu/ vivid/main libicu52 amd64 52.1-7 [6801 kB]
Get:6 http://ftpmaster.internal/ubuntu/ vivid/main libpipeline1 amd64 1.4.0-1 [25.2 kB]
Get:7 http://ftpmaster.internal/ubuntu/ vivid/main libxau6 amd64 1:1.0.8-1 [8376 B]
Get:8 http://ftpmaster.internal/ubuntu/ vivid/main libxdmcp6 amd64 1:1.1.1-1build1 [11.0 kB]
Get:9 http://ftpmaster.internal/ubuntu/ vivid/main libxcb1 amd64 1.10-2ubuntu1 [38.0 kB]
Get:10 http://ftpmaster.internal/ubuntu/ vivid/main libx11-data all 2:1.6.2-2ubuntu2 [112 kB]
Get:11 http://ftpmaster.internal/ubuntu/ vivid/main libx11-6 amd64 2:1.6.2-2ubuntu2 [571 kB]
Get:12 http://ftpmaster.internal/ubuntu/ vivid/main libxext6 amd64 2:1.3.3-1 [29.4 kB]
Get:13 http://ftpmaster.internal/ubuntu/ vivid/main libxml2 amd64 2.9.2+dfsg1-3 [714 kB]
Get:14 http://ftpmaster.internal/ubuntu/ vivid/main groff-base amd64 1.22.3-1 [1183 kB]
Get:15 http://ftpmaster.internal/ubuntu/ vivid/main bsdmainutils amd64 9.0.6ubuntu1 [175 kB]
Get:16 http://ftpmaster.internal/ubuntu/ vivid/main man-db amd64 2.7.0.2-5 [863 kB]
Get:17 http://ftpmaster.internal/ubuntu/ vivid/main libtcl8.6 amd64 8.6.1-6ubuntu1 [849 kB]
Get:18 http://ftpmaster.internal/ubuntu/ vivid/main fonts-dejavu-core all 2.34-1ubuntu1 [1024 kB]
Get:19 http://ftpmaster.internal/ubuntu/ vivid/main ucf all 3.0030 [55.5 kB]
Get:20 http://ftpmaster.internal/ubuntu/ vivid/main fontconfig-config all 2.11.1-0ubuntu6 [48.7 kB]
Get:21 http://ftpmaster.internal/ubuntu/ vivid/main libfreetype6 amd64 2.5.2-2ubuntu2 [314 kB]
Get:22 http://ftpmaster.internal/ubuntu/ vivid/main libfontconfig1 amd64 2.11.1-0ubuntu6 [127 kB]
Get:23 http://ftpmaster.internal/ubuntu/ vivid/main libxrender1 amd64 1:0.9.8-1 [20.9 kB]
Get:24 http://ftpmaster.internal/ubuntu/ vivid/main libxft2 amd64 2.3.2-1 [36.1 kB]
Get:25 http://ftpmaster.internal/ubuntu/ vivid/main x11-common all 1:7.7+7ubuntu2 [62.5 kB]
Get:26 http://ftpmaster.internal/ubuntu/ vivid/main libxss1 amd64 1:1.2.2-1 [8582 B]
Get:27 http://ftpmaster.internal/ubuntu/ vivid/main libtk8.6 amd64 8.6.1-3ubuntu2 [689 kB]
Get:28 http://ftpmaster.internal/ubuntu/ vivid/universe itcl3 amd64 3.4.1-2 [48.3 kB]
Get:29 http://ftpmaster.internal/ubuntu/ vivid/universe itk3 amd64 3.3-5.1 [35.7 kB]
Get:30 http://ftpmaster.internal/ubuntu/ vivid/main libcroco3 amd64 0.6.8-3 [83.2 kB]
Get:31 http://ftpmaster.internal/ubuntu/ vivid/main libcurl3 amd64 7.38.0-3ubuntu2 [180 kB]
Get:32 http://ftpmaster.internal/ubuntu/ vivid/main libice6 amd64 2:1.0.9-1 [39.2 kB]
Get:33 http://ftpmaster.internal/ubuntu/ vivid/main libsm6 amd64 2:1.2.2-1 [15.8 kB]
Get:34 http://ftpmaster.internal/ubuntu/ vivid/main libunistring0 amd64 0.9.3-5.2ubuntu1 [279 kB]
Get:35 http://ftpmaster.internal/ubuntu/ vivid/main libxt6 amd64 1:1.1.4-1 [185 kB]
Get:36 http://ftpmaster.internal/ubuntu/ vivid/main file amd64 1:5.20-1ubuntu2 [20.1 kB]
Get:37 http://ftpmaster.internal/ubuntu/ vivid/main gettext-base amd64 0.19.2-2ubuntu1 [48.3 kB]
Get:38 http://ftpmaster.internal/ubuntu/ vivid/main gettext amd64 0.19.2-2ubuntu1 [851 kB]
Get:39 http://ftpmaster.internal/ubuntu/ vivid/main intltool-debian all 0.35.0+20060710.1 [31.6 kB]
Get:40 http://ftpmaster.internal/ubuntu/ vivid/main po-debconf all 1.0.16+nmu3 [207 kB]
Get:41 http://ftpmaster.internal/ubuntu/ vivid/main dh-apparmor all 2.8.98-0ubuntu4 [10.9 kB]
Get:42 http://ftpmaster.internal/ubuntu/ vivid/main debhelper all 9.20150101ubuntu1 [727 kB]
Get:43 http://ftpmaster.internal/ubuntu/ vivid/main zlib1g-dev amd64 1:1.2.8.dfsg-2ubuntu1 [169 kB]
Get:44 http://ftpmaster.internal/ubuntu/ vivid/main tcl8.6 amd64 8.6.1-6ubuntu1 [14.3 kB]
Get:45 http://ftpmaster.internal/ubuntu/ vivid/main tcl8.6-dev amd64 8.6.1-6ubuntu1 [854 kB]
Get:46 http://ftpmaster.internal/ubuntu/ vivid/main tcl amd64 8.6.0+6ubuntu3 [4900 B]
Get:47 http://ftpmaster.internal/ubuntu/ vivid/main tcl-dev amd64 8.6.0+6ubuntu3 [5436 B]
Get:48 http://ftpmaster.internal/ubuntu/ vivid/universe itcl3-dev amd64 3.4.1-2 [15.6 kB]
Get:49 http://ftpmaster.internal/ubuntu/ vivid/main xorg-sgml-doctools all 1:1.11-1 [12.9 kB]
Get:50 http://ftpmaster.internal/ubuntu/ vivid/main x11proto-core-dev all 7.0.26-1 [700 kB]
Get:51 http://ftpmaster.internal/ubuntu/ vivid/main libxau-dev amd64 1:1.0.8-1 [11.1 kB]
Get:52 http://ftpmaster.internal/ubuntu/ vivid/main libxdmcp-dev amd64 1:1.1.1-1build1 [24.6 kB]
Get:53 http://ftpmaster.internal/ubuntu/ vivid/main x11proto-input-dev all 2.3.1-1 [118 kB]
Get:54 http://ftpmaster.internal/ubuntu/ vivid/main x11proto-kb-dev all 1.0.6-2 [269 kB]
Get:55 http://ftpmaster.internal/ubuntu/ vivid/main xtrans-dev all 1.3.5-1 [70.5 kB]
Get:56 http://ftpmaster.internal/ubuntu/ vivid/main libpthread-stubs0-dev amd64 0.3-4 [4068 B]
Get:57 http://ftpmaster.internal/ubuntu/ vivid/main libxcb1-dev amd64 1.10-2ubuntu1 [76.6 kB]
Get:58 http://ftpmaster.internal/ubuntu/ vivid/main libx11-dev amd64 2:1.6.2-2ubuntu2 [640 kB]
Get:59 http://ftpmaster.internal/ubuntu/ vivid/main libice-dev amd64 2:1.0.9-1 [44.9 kB]
Get:60 http://ftpmaster.internal/ubuntu/ vivid/main libsm-dev amd64 2:1.2.2-1 [16.2 kB]
Get:61 http://ftpmaster.internal/ubuntu/ vivid/main libxt-dev amd64 1:1.1.4-1 [455 kB]
Get:62 http://ftpmaster.internal/ubuntu/ vivid/main x11proto-xext-dev all 7.3.0-1 [212 kB]
Get:63 http://ftpmaster.internal/ubuntu/ vivid/main libxext-dev amd64 2:1.3.3-1 [82.1 kB]
Get:64 http://ftpmaster.internal/ubuntu/ vivid/main x11proto-scrnsaver-dev all 1.2.2-1 [25.0 kB]
Get:65 http://ftpmaster.internal/ubuntu/ vivid/main libxss-dev amd64 1:1.2.2-1 [12.7 kB]
Get:66 http://ftpmaster.internal/ubuntu/ vivid/main libexpat1-dev amd64 2.1.0-6ubuntu1 [115 kB]
Get:67 http://ftpmaster.internal/ubuntu/ vivid/main libpng12-dev amd64 1.2.51-0ubuntu3 [208 kB]
Get:68 http://ftpmaster.internal/ubuntu/ vivid/main libfreetype6-dev amd64 2.5.2-2ubuntu2 [632 kB]
Get:69 http://ftpmaster.internal/ubuntu/ vivid/main pkg-config amd64 0.28-1ubuntu1 [40.0 kB]
Get:70 http://ftpmaster.internal/ubuntu/ vivid/main libfontconfig1-dev amd64 2.11.1-0ubuntu6 [641 kB]
Get:71 http://ftpmaster.internal/ubuntu/ vivid/main x11proto-render-dev all 2:0.11.1-2 [20.1 kB]
Get:72 http://ftpmaster.internal/ubuntu/ vivid/main libxrender-dev amd64 1:0.9.8-1 [28.5 kB]
Get:73 http://ftpmaster.internal/ubuntu/ vivid/main libxft-dev amd64 2.3.2-1 [45.7 kB]
Get:74 http://ftpmaster.internal/ubuntu/ vivid/main tk8.6 amd64 8.6.1-3ubuntu2 [12.1 kB]
Get:75 http://ftpmaster.internal/ubuntu/ vivid/main tk8.6-dev amd64 8.6.1-3ubuntu2 [665 kB]
Get:76 http://ftpmaster.internal/ubuntu/ vivid/main tk amd64 8.6.0+6ubuntu3 [3192 B]
Get:77 http://ftpmaster.internal/ubuntu/ vivid/main tk-dev amd64 8.6.0+6ubuntu3 [2964 B]
Get:78 http://ftpmaster.internal/ubuntu/ vivid/universe itk3-dev amd64 3.3-5.1 [5626 B]
Get:79 http://ftpmaster.internal/ubuntu/ vivid/universe iwidgets4 all 4.0.1-6 [256 kB]
Get:80 http://ftpmaster.internal/ubuntu/ vivid/main libbz2-dev amd64 1.0.6-7 [29.0 kB]
Get:81 http://ftpmaster.internal/ubuntu/ vivid/main libcurl4-openssl-dev amd64 7.38.0-3ubuntu2 [253 kB]
Get:82 http://ftpmaster.internal/ubuntu/ vivid/main libtinfo-dev amd64 5.9+20140712-2ubuntu1 [76.3 kB]
Get:83 http://ftpmaster.internal/ubuntu/ vivid/main libncurses5-dev amd64 5.9+20140712-2ubuntu1 [174 kB]
Get:84 http://ftpmaster.internal/ubuntu/ vivid/universe libstaden-read1 amd64 1.13.7-1 [186 kB]
Get:85 http://ftpmaster.internal/ubuntu/ vivid/universe libstaden-read-dev amd64 1.13.7-1 [251 kB]
Get:86 http://ftpmaster.internal/ubuntu/ vivid/universe tklib all 0.6-1 [1259 kB]
Get:87 http://ftpmaster.internal/ubuntu/ vivid/main liblzma-dev amd64 5.1.1alpha+20120614-2ubuntu2 [137 kB]
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Setting up libexpat1:amd64 (2.1.0-6ubuntu1) ...
Setting up libmagic1:amd64 (1:5.20-1ubuntu2) ...
Setting up libasprintf0c2:amd64 (0.19.2-2ubuntu1) ...
Setting up libglib2.0-0:amd64 (2.43.4-1) ...
No schema files found: doing nothing.
Setting up libicu52:amd64 (52.1-7) ...
Setting up libpipeline1:amd64 (1.4.0-1) ...
Setting up libxau6:amd64 (1:1.0.8-1) ...
Setting up libxdmcp6:amd64 (1:1.1.1-1build1) ...
Setting up libxcb1:amd64 (1.10-2ubuntu1) ...
Setting up libx11-data (2:1.6.2-2ubuntu2) ...
Setting up libx11-6:amd64 (2:1.6.2-2ubuntu2) ...
Setting up libxext6:amd64 (2:1.3.3-1) ...
Setting up libxml2:amd64 (2.9.2+dfsg1-3) ...
Setting up groff-base (1.22.3-1) ...
Setting up bsdmainutils (9.0.6ubuntu1) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up man-db (2.7.0.2-5) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libtcl8.6:amd64 (8.6.1-6ubuntu1) ...
Setting up fonts-dejavu-core (2.34-1ubuntu1) ...
Setting up ucf (3.0030) ...
Setting up fontconfig-config (2.11.1-0ubuntu6) ...
Setting up libfreetype6:amd64 (2.5.2-2ubuntu2) ...
Setting up libfontconfig1:amd64 (2.11.1-0ubuntu6) ...
Setting up libxrender1:amd64 (1:0.9.8-1) ...
Setting up libxft2:amd64 (2.3.2-1) ...
Setting up x11-common (1:7.7+7ubuntu2) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
invoke-rc.d: policy-rc.d denied execution of start.
Setting up libxss1:amd64 (1:1.2.2-1) ...
Setting up libtk8.6:amd64 (8.6.1-3ubuntu2) ...
Setting up itcl3:amd64 (3.4.1-2) ...
Setting up itk3:amd64 (3.3-5.1) ...
Setting up libcroco3:amd64 (0.6.8-3) ...
Setting up libcurl3:amd64 (7.38.0-3ubuntu2) ...
Setting up libice6:amd64 (2:1.0.9-1) ...
Setting up libsm6:amd64 (2:1.2.2-1) ...
Setting up libunistring0:amd64 (0.9.3-5.2ubuntu1) ...
Setting up libxt6:amd64 (1:1.1.4-1) ...
Setting up file (1:5.20-1ubuntu2) ...
Setting up gettext-base (0.19.2-2ubuntu1) ...
Setting up gettext (0.19.2-2ubuntu1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu3) ...
Setting up dh-apparmor (2.8.98-0ubuntu4) ...
Setting up debhelper (9.20150101ubuntu1) ...
Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-2ubuntu1) ...
Setting up tcl8.6 (8.6.1-6ubuntu1) ...
Setting up tcl8.6-dev:amd64 (8.6.1-6ubuntu1) ...
Setting up tcl (8.6.0+6ubuntu3) ...
Setting up tcl-dev:amd64 (8.6.0+6ubuntu3) ...
Setting up itcl3-dev:amd64 (3.4.1-2) ...
Setting up xorg-sgml-doctools (1:1.11-1) ...
Setting up x11proto-core-dev (7.0.26-1) ...
Setting up libxau-dev:amd64 (1:1.0.8-1) ...
Setting up libxdmcp-dev:amd64 (1:1.1.1-1build1) ...
Setting up x11proto-input-dev (2.3.1-1) ...
Setting up x11proto-kb-dev (1.0.6-2) ...
Setting up xtrans-dev (1.3.5-1) ...
Setting up libpthread-stubs0-dev:amd64 (0.3-4) ...
Setting up libxcb1-dev:amd64 (1.10-2ubuntu1) ...
Setting up libx11-dev:amd64 (2:1.6.2-2ubuntu2) ...
Setting up libice-dev:amd64 (2:1.0.9-1) ...
Setting up libsm-dev:amd64 (2:1.2.2-1) ...
Setting up libxt-dev:amd64 (1:1.1.4-1) ...
Setting up x11proto-xext-dev (7.3.0-1) ...
Setting up libxext-dev:amd64 (2:1.3.3-1) ...
Setting up x11proto-scrnsaver-dev (1.2.2-1) ...
Setting up libxss-dev:amd64 (1:1.2.2-1) ...
Setting up libexpat1-dev:amd64 (2.1.0-6ubuntu1) ...
Setting up libpng12-dev:amd64 (1.2.51-0ubuntu3) ...
Setting up libfreetype6-dev:amd64 (2.5.2-2ubuntu2) ...
Setting up pkg-config (0.28-1ubuntu1) ...
Setting up libfontconfig1-dev:amd64 (2.11.1-0ubuntu6) ...
Setting up x11proto-render-dev (2:0.11.1-2) ...
Setting up libxrender-dev:amd64 (1:0.9.8-1) ...
Setting up libxft-dev (2.3.2-1) ...
Setting up tk8.6 (8.6.1-3ubuntu2) ...
Setting up tk8.6-dev:amd64 (8.6.1-3ubuntu2) ...
Setting up tk (8.6.0+6ubuntu3) ...
Setting up tk-dev:amd64 (8.6.0+6ubuntu3) ...
Setting up itk3-dev:amd64 (3.3-5.1) ...
Setting up iwidgets4 (4.0.1-6) ...
Setting up libbz2-dev:amd64 (1.0.6-7) ...
Setting up libcurl4-openssl-dev:amd64 (7.38.0-3ubuntu2) ...
Setting up libtinfo-dev:amd64 (5.9+20140712-2ubuntu1) ...
Setting up libncurses5-dev:amd64 (5.9+20140712-2ubuntu1) ...
Setting up libstaden-read1 (1.13.7-1) ...
Setting up libstaden-read-dev (1.13.7-1) ...
Setting up tklib (0.6-1) ...
Setting up liblzma-dev:amd64 (5.1.1alpha+20120614-2ubuntu2) ...
Processing triggers for libc-bin (2.19-15ubuntu1) ...
Checking correctness of source dependencies...
Toolchain package versions: libc6-dev_2.19-15ubuntu1 make_4.0-8.1 dpkg-dev_1.17.23ubuntu1 gcc-5_5-20150205-0ubuntu11 g++-5_5-20150205-0ubuntu11 binutils_2.25-2ubuntu2 libstdc++-5-dev_5-20150205-0ubuntu11 libstdc++6_5-20150205-0ubuntu11
------------------------------------------------------------------------------
dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::Quilt
gpgv: Signature made Fri Jul 11 06:02:09 2014 UTC using DSA key ID 6A461052
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./staden_2.0.0+b10-1.1.dsc
dpkg-source: info: extracting staden in staden-2.0.0+b10
dpkg-source: info: unpacking staden_2.0.0+b10.orig.tar.gz
dpkg-source: info: unpacking staden_2.0.0+b10-1.1.debian.tar.xz
dpkg-source: info: applying make_help_menus_work.patch
dpkg-source: info: applying hardening_format-security.patch
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying fix_tcl_path.patch
dpkg-source: info: applying fix_awk.patch
dpkg-source: info: applying enable_setting_stadenroot.patch
dpkg-buildpackage: source package staden
dpkg-buildpackage: source version 2.0.0+b10-1.1
dpkg-buildpackage: source distribution unstable
 dpkg-source --before-build staden-2.0.0+b10
dpkg-buildpackage: host architecture amd64
 /usr/bin/fakeroot debian/rules clean
dh clean
   dh_testdir
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/buildd/staden-2.0.0+b10'
make spotless || true
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10'
make[2]: *** No rule to make target 'spotless'.  Stop.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10'
rm -f config.log config.status
rm -f Makefile shlib.conf staden_config.h system.mk
find -name debian -prune -o -name .dir -exec rm '{}' ';'
make[1]: Leaving directory '/build/buildd/staden-2.0.0+b10'
   dh_clean
 debian/rules build
dh build
   dh_testdir
   debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/buildd/staden-2.0.0+b10'
dh_auto_configure --  \
	--with-itcl=/usr/lib/tcltk/x86_64-linux-gnu \
	--with-itk=/usr/lib/tcltk/x86_64-linux-gnu
configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-dependency-tracking
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for gawk... no
checking for mawk... mawk
checking for curl-config... /usr/bin/curl-config
checking for the version of libcurl... 7.38.0
checking whether libcurl just needs -lcurl... yes
checking whether libcurl is usable... yes
checking for curl_free... yes
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for inflateEnd in -lz... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for lzma_easy_buffer_encode in -llzma... yes
checking lzma.h usability... yes
checking lzma.h presence... yes
checking for lzma.h... yes
checking for png_create_write_struct in -lpng... yes
checking png.h usability... yes
checking png.h presence... yes
checking for png.h... yes
checking for staden-io_lib-config... no
checking for io_lib-config... /usr/bin/io_lib-config
checking if io_lib version >= 1.12.5... yes
checking io_lib/Read.h usability... yes
checking io_lib/Read.h presence... yes
checking for io_lib/Read.h... yes
checking for mvwprintw in -lncurses... yes
checking ncurses.h usability... yes
checking ncurses.h presence... yes
checking for ncurses.h... yes
checking for ANSI C header files... (cached) yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking for unistd.h... (cached) yes
checking for zlib.h... (cached) yes
checking pwd.h usability... yes
checking pwd.h presence... yes
checking for pwd.h... yes
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for _LARGEFILE_SOURCE value needed for large files... no
checking for library containing cos... -lm
checking for popen... yes
checking for X... libraries , headers 
checking for gethostbyname... yes
checking for connect... yes
checking for remove... yes
checking for shmat... yes
checking for IceConnectionNumber in -lICE... yes
checking whether byte ordering is bigendian... no
checking for inline... inline
checking for correct TEA configuration... ok (TEA 3.9)
configure: configuring staden 2.0.0b10
checking for Tcl configuration... found /usr/lib/tclConfig.sh
checking for existence of /usr/lib/tclConfig.sh... loading
checking platform... unix
checking for Tk configuration... found /usr/lib/tkConfig.sh
checking for existence of /usr/lib/tkConfig.sh... loading
checking for ranlib... ranlib
checking if 64bit support is requested... no
checking if 64bit Sparc VIS support is requested... no
checking if compiler supports visibility "hidden"... yes
checking if rpath support is requested... yes
checking system version... Linux-3.2.0-75-generic
checking for ar... ar
checking for SEH support in compiler... no
checking for EXCEPTION_DISPOSITION support in include files... no
checking for winnt.h that ignores VOID define... no
checking for cast to union support... yes
checking for required early compiler flags... none
checking for 64-bit integer type... using long
checking for tclsh... /usr/bin/tclsh8.6
checking for Tcl public headers... /usr/include/tcl8.6
checking for Tcl private include files... Using srcdir found in tclConfig.sh: /usr/include/tcl8.6/tcl-private
checking for Tk public headers... /usr/include/tcl8.6
checking for Tk private include files... Using srcdir found in tkConfig.sh: /usr/include/tcl8.6/tk-private
checking tklib directory... yes (/usr/share/tcltk/tklib0.6)
checking iwidgets directory... yes (/usr/share/tcltk/iwidgets4.0.1)
checking itcl directory... vers=/3004000/
yes (/usr/lib/tcltk/x86_64-linux-gnu/itcl3.4)
checking itk directory... yes (/usr/lib/tcltk/x86_64-linux-gnu/itk3.3)
configure: creating ./config.status
config.status: creating Makefile
config.status: creating system.mk
config.status: creating shlib.conf
config.status: creating gap5/gap5
config.status: creating gap5/tg_view
config.status: creating gap5/tg_index
config.status: creating gap5/gap5_cmd
config.status: creating gap4/gap4
config.status: creating copy_reads/copy_reads
config.status: creating trev/trev
config.status: creating prefinish/prefinish
config.status: creating pregap4/pregap4
config.status: creating spin/spin
config.status: creating staden_config.h
configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-dependency-tracking

----------------------------------------------------------------------
External packages used:
curl:      via /usr/bin/curl-config
zlib:      DIR (system)
curses:    DIR (system)
liblzma:   DIR 
io_lib:    via /usr/bin/io_lib-config
Tcl:       via /usr/lib/tclConfig.sh
Tk:        via /usr/lib/tkConfig.sh
tklib:     /usr/share/tcltk/tklib0.6
Iwidgets:  /usr/share/tcltk/iwidgets4.0.1
Itcl:      /usr/lib/tcltk/x86_64-linux-gnu/itcl3.4
Itk:       /usr/lib/tcltk/x86_64-linux-gnu/itk3.3
----------------------------------------------------------------------
make[1]: Leaving directory '/build/buildd/staden-2.0.0+b10'
   dh_auto_build
make[1]: Entering directory '/build/buildd/staden-2.0.0+b10'
cd Misc && make -f /build/buildd/staden-2.0.0+b10/./Misc/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./Misc SUBDIR=Misc all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/Misc'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o crash.o -c crash.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o date.o -c date.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o filenames.o -c filenames.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o files.o -c files.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o find.o -c find.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o shell.o -c shell.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o strings.o -c strings.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o usleep.o -c usleep.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o error.o -c error.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o xerror.o -c xerror.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o xalloc.o -c xalloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o vlen.o -c vlen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o FtoC.o -c FtoC.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o getfile.o -c getfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o bitmap.o -c bitmap.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o array.o -c array.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o locks.o -c locks.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o array_arith.o -c array_arith.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o parse_db.o -c parse_db.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o dstring.o -c dstring.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o string_alloc.o -c string_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o strtol64.o -c strtol64.c
mkdir -p /build/buildd/staden-2.0.0+b10/lib 2>/dev/null
touch /build/buildd/staden-2.0.0+b10/lib/.dir
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libmisc.so  crash.o date.o filenames.o files.o find.o shell.o strings.o usleep.o error.o xerror.o xalloc.o vlen.o FtoC.o getfile.o bitmap.o array.o locks.o array_arith.o parse_db.o dstring.o string_alloc.o strtol64.o      -lm 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/Misc'
cd tk_utils && make -f /build/buildd/staden-2.0.0+b10/./tk_utils/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./tk_utils SUBDIR=tk_utils all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/tk_utils'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o cli_arg.o -c cli_arg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tclXkeylist.o -c tclXkeylist.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tclXutil.o -c tclXutil.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tcl_utils.o -c tcl_utils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tcl_debug.o -c tcl_debug.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o misc.o -c misc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o init.o -c init.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o text_output.o -c text_output.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkRaster.o -c tkRaster.c
In file included from tkRaster.c:45:0:
tkRaster.c: In function 'DrawEnvIndex':
tkRaster.c:2266:62: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
    entryPtr = Tcl_FindHashEntry (&(RasterPtr->drawEnvTable), (char*)drawenvno);
                                                              ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2575:53: note: in definition of macro 'Tcl_FindHashEntry'
  (*((tablePtr)->findProc))(tablePtr, (const char *)(key))
                                                     ^
tkRaster.c: In function 'CreateDrawEnv':
tkRaster.c:2353:8: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
        (char*) (RasterPtr->drawEnvCount),
        ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2578:55: note: in definition of macro 'Tcl_CreateHashEntry'
  (*((tablePtr)->createProc))(tablePtr, (const char *)(key), newPtr)
                                                       ^
tkRaster.c: In function 'DestroyDrawEnv':
tkRaster.c:2381:6: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      (char*)(drawenvptr->index));
      ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2575:53: note: in definition of macro 'Tcl_FindHashEntry'
  (*((tablePtr)->findProc))(tablePtr, (const char *)(key))
                                                     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkRasterBuiltIn.o -c tkRasterBuiltIn.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o sheet.o -c sheet.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkSheet.o -c tkSheet.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkSheet_common.o -c tkSheet_common.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o trace_print.o -c trace_print.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o postscript.o -c postscript.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o split.o -c split.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkTrace.o -c tkTrace.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkTraceComp.o -c tkTraceComp.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkTraceIO.o -c tkTraceIO.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tkTraceDisp.o -c tkTraceDisp.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o capture.o -c capture.c
capture.c: In function 'tcl_capture':
capture.c:53:5: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
     read(fd, buf, statbuf.st_size);
     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o canvas_box.o -c canvas_box.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o ruler_tick.o -c ruler_tick.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o restriction_enzyme_map.o -c restriction_enzyme_map.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o element_canvas.o -c element_canvas.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o container.o -c container.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o container_ruler.o -c container_ruler.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tcl_io_lib.o -c tcl_io_lib.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/usr/include -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./seq_utils   -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libtk_utils.so  cli_arg.o tclXkeylist.o tclXutil.o tcl_utils.o tcl_debug.o misc.o init.o text_output.o tkRaster.o tkRasterBuiltIn.o sheet.o tkSheet.o tkSheet_common.o trace_print.o postscript.o split.o tkTrace.o tkTraceComp.o tkTraceIO.o tkTraceDisp.o capture.o canvas_box.o ruler_tick.o restriction_enzyme_map.o element_canvas.o container.o container_ruler.o tcl_io_lib.o  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -lmisc  -lpng -lz 
capture.o: In function `tcl_capture':
/build/buildd/staden-2.0.0+b10/tk_utils/capture.c:31: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/tk_utils'
cd text_utils && make -f /build/buildd/staden-2.0.0+b10/./text_utils/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./text_utils SUBDIR=text_utils all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/text_utils'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o text_output_stubs.o -c text_output_stubs.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o text_output_stubs2.o -c text_output_stubs2.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10/./Misc  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libtext_utils.so  text_output_stubs.o text_output_stubs2.o  -lmisc 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/text_utils'
cd seq_utils && make -f /build/buildd/staden-2.0.0+b10/./seq_utils/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./seq_utils SUBDIR=seq_utils all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/seq_utils'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align.o -c align.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align_lib_old.o -c align_lib_old.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align_ss.o -c align_ss.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align_ss2.o -c align_ss2.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align_sv.o -c align_sv.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o dna_utils.o -c dna_utils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o genetic_code.o -c genetic_code.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o renz_utils.o -c renz_utils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o sequence_formats.o -c sequence_formats.c
sequence_formats.c: In function 'get_embl_format_seq':
sequence_formats.c:729:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
        fgets(line, loc_len, fp);       
        ^
sequence_formats.c:738:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, loc_len, fp);
     ^
sequence_formats.c: In function 'add_feat':
sequence_formats.c:481:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, loc_len, fp); 
   ^
sequence_formats.c:510:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
       fgets(line, loc_len, fp);
       ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o scramble.o -c scramble.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o base_comp.o -c base_comp.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o open_reading_frames.o -c open_reading_frames.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o edge.o -c edge.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o search_utils.o -c search_utils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align_lib.o -c align_lib.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o read_matrix.o -c read_matrix.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o filter_words.o -c filter_words.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so  align.o align_lib_old.o align_ss.o align_ss2.o align_sv.o dna_utils.o genetic_code.o renz_utils.o sequence_formats.o scramble.o base_comp.o open_reading_frames.o edge.o search_utils.o align_lib.o read_matrix.o filter_words.o  -ltext_utils   -lmisc 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/seq_utils'
cd mutlib && make -f /build/buildd/staden-2.0.0+b10/./mutlib/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./mutlib SUBDIR=mutlib all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/mutlib'
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o align.o -c align.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o basecall.o -c basecall.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o caller.o -c caller.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o caller_snr.o -c caller_snr.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o caller_base.o -c caller_base.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o caller_level.o -c caller_level.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o dnatable.o -c dnatable.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o muttag.o -c muttag.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutationtag.o -c mutationtag.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutationtag_utils.o -c mutationtag_utils.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o pathutil.o -c pathutil.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o peakcall.o -c peakcall.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o stringlist.o -c stringlist.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tagarray.o -c tagarray.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o trace.o -c trace.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o validate.o -c validate.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o read_matrix.o -c read_matrix.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o sp_align_lib.o -c sp_align_lib.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o sp_alignment.o -c sp_alignment.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o sp_hash_lib.o -c sp_hash_lib.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o sp_matrix.o -c sp_matrix.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracediff.o -c tracediff.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracediff_helper.o -c tracediff_helper.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracediff_mutations.o -c tracediff_mutations.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracediff_parameters.o -c tracediff_parameters.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracediff_validate.o -c tracediff_validate.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracealign.o -c tracealign.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracealign_cache.o -c tracealign_cache.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracealign_helper.o -c tracealign_helper.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracealign_interpolate.o -c tracealign_interpolate.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracealign_preprocess.o -c tracealign_preprocess.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o tracealign_validate.o -c tracealign_validate.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutscan.o -c mutscan.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutscan_helper.o -c mutscan_helper.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutscan_validate.o -c mutscan_validate.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutscan_analysis.o -c mutscan_analysis.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutscan_preprocess.o -c mutscan_preprocess.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -o mutscan_parameters.o -c mutscan_parameters.cpp
cp /build/buildd/staden-2.0.0+b10/./mutlib/mutlib.def  2>&-
/build/buildd/staden-2.0.0+b10/./mutlib/Makefile:81: recipe for target '/build/buildd/staden-2.0.0+b10/lib/libmutlib.so' failed
make[2]: [/build/buildd/staden-2.0.0+b10/lib/libmutlib.so] Error 1 (ignored)
g++ -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DMUTLIB_EXPORTS -DDYNMAT  -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libmutlib.so  align.o basecall.o caller.o caller_snr.o caller_base.o caller_level.o dnatable.o muttag.o mutationtag.o mutationtag_utils.o pathutil.o peakcall.o stringlist.o tagarray.o trace.o validate.o read_matrix.o sp_align_lib.o sp_alignment.o sp_hash_lib.o sp_matrix.o tracediff.o tracediff_helper.o tracediff_mutations.o tracediff_parameters.o tracediff_validate.o tracealign.o tracealign_cache.o tracealign_helper.o tracealign_interpolate.o tracealign_preprocess.o tracealign_validate.o mutscan.o mutscan_helper.o mutscan_validate.o mutscan_analysis.o mutscan_preprocess.o mutscan_parameters.o  -lseq_utils   -ltk_utils  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm  -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/mutlib'
cd abi && make -f /build/buildd/staden-2.0.0+b10/./abi/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./abi SUBDIR=abi all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/abi'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./abi -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o abiIO.o -c abiIO.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./abi -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o getABISampleName.o -c getABISampleName.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o getABISampleName  abiIO.o getABISampleName.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm   
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./abi -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o getABIcomment.o -c getABIcomment.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o getABIcomment  abiIO.o getABIcomment.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm   
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./abi -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o getABIdate.o -c getABIdate.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o getABIdate  abiIO.o getABIdate.o   -lmisc   -lm   
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./abi -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o getABIfield.o -c getABIfield.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o getABIfield  abiIO.o getABIfield.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/abi'
cd alf && make -f /build/buildd/staden-2.0.0+b10/./alf/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./alf SUBDIR=alf all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/alf'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./alf -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o alfsplit.o -c alfsplit.c
alfsplit.c: In function 'main':
alfsplit.c:347:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread (buf,512,1,inData) ;
   ^
alfsplit.c:363:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread (buf,512,1,inData) ;
   ^
alfsplit.c: In function 'readIndexEntry':
alfsplit.c:129:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
     fread (ent->label,40,1,fil) ;
     ^
alfsplit.c:135:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
     fread (junk,70,1,fil) ;
     ^
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o alfsplit  alfsplit.o  -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/alf'
cd g && make -f /build/buildd/staden-2.0.0+b10/./g/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./g SUBDIR=g all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/g'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-files.o -c g-files.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-db.o -c g-db.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-struct.o -c g-struct.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o freetree.o -c freetree.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-error.o -c g-error.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-io.o -c g-io.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-connect.o -c g-connect.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -o g-request.o -c g-request.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC    -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC   -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libg.so  g-files.o g-db.o g-struct.o freetree.o g-error.o g-io.o g-connect.o g-request.o  -lmisc 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/g'
cd trev && make -f /build/buildd/staden-2.0.0+b10/./trev/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./trev SUBDIR=trev all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/trev'
make[2]: Nothing to be done for 'all'.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/trev'
cd primer3 && make -f /build/buildd/staden-2.0.0+b10/./primer3/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./primer3 SUBDIR=primer3 all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/primer3'
make[2]: Nothing to be done for 'all'.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/primer3'
cd primer3/src && make -f /build/buildd/staden-2.0.0+b10/./primer3/src/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./primer3/src SUBDIR=primer3/src all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/primer3/src'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o primer3_lib.o -c primer3_lib.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o primer3_release.o -c primer3_release.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o oligotm.o -c oligotm.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36 -o dpal_primer.o -c dpal.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o format_output.o -c format_output.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o boulder_input.o -c boulder_input.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libprimer3.so  primer3_lib.o primer3_release.o oligotm.o dpal_primer.o format_output.o boulder_input.o   -lm 
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST -DDPAL_MAX_ALIGN=36 -DMAX_PRIMER_LENGTH=36  -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o primer3_main.o -c primer3_main.c
primer3_main.c: In function 'pr_safe_malloc':
primer3_main.c:520:5: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
     write(2, pr_program_name, pr_program_name_len), \
     ^
primer3_main.c:528:20: note: in expansion of macro 'OOM_ERROR'
     if (NULL == r) OOM_ERROR;
                    ^
primer3_main.c:521:5: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
     write(2, OOM_MESSAGE, OOM_MESSAGE_LEN),   \
     ^
primer3_main.c:528:20: note: in expansion of macro 'OOM_ERROR'
     if (NULL == r) OOM_ERROR;
                    ^
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o primer3_core  primer3_main.o   -lprimer3   -lm   -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/primer3/src'
cd gap4 && make -f /build/buildd/staden-2.0.0+b10/./gap4/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./gap4 SUBDIR=gap4 all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/gap4'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-local.o -c gap-local.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-remote.o -c gap-remote.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-if.o -c gap-if.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-init.o -c gap-init.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-dbstruct.o -c gap-dbstruct.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-create.o -c gap-create.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-error.o -c gap-error.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o stack_dump.o -c stack_dump.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-io.o -c gap-io.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o IO1.o -c IO1.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o io-reg.o -c io-reg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o actf.o -c actf.c
actf.c: In function 'actf_lock':
actf.c:246:5: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
     write(fd, db_path, strlen(db_path));
     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o IO2.o -c IO2.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqInfo.o -c seqInfo.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o parse_ft.o -c parse_ft.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o IO3.o -c IO3.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o io_utils.o -c io_utils.c
io_utils.c: In function 'template_name_to_number':
io_utils.c:38:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
     return (int)Tcl_GetHashValue(hash);
            ^
io_utils.c: In function 'read_name_to_number':
io_utils.c:84:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
     return (int)Tcl_GetHashValue(hash);
            ^
In file included from IO1.h:50:0,
                 from io_utils.h:6,
                 from io_utils.c:6:
io_utils.c: In function 'cache_template_name':
io_utils.c:549:25: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
  Tcl_SetHashValue(hash, (ClientData)number);
                         ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2561:69: note: in definition of macro 'Tcl_SetHashValue'
 #define Tcl_SetHashValue(h, value) ((h)->clientData = (ClientData) (value))
                                                                     ^
io_utils.c: In function 'cache_read_name':
io_utils.c:566:25: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
  Tcl_SetHashValue(hash, (ClientData)number);
                         ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2561:69: note: in definition of macro 'Tcl_SetHashValue'
 #define Tcl_SetHashValue(h, value) ((h)->clientData = (ClientData) (value))
                                                                     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o io_handle.o -c io_handle.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-tcl.o -c gap-tcl.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tk-io-reg.o -c tk-io-reg.c
tk-io-reg.c: In function 'tk_result_is_consistency':
tk-io-reg.c:604:22: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
  if (args.cons_id == (int)gen.data) {
                      ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_cli_arg.o -c gap_cli_arg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_globals.o -c gap_globals.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o newgap_cmds.o -c newgap_cmds.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o init.o -c init.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o consen.o -c consen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_hash.o -c gap_hash.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o qual.o -c qual.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o qualIO.o -c qualIO.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o bubbl3.o -c bubbl3.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tagdb.o -c tagdb.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o notedb.o -c notedb.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o active_tags.o -c active_tags.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o dbcheck.o -c dbcheck.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o clones.o -c clones.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o extract.o -c extract.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o preass.o -c preass.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o list.o -c list.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o reactions.o -c reactions.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o probe.o -c probe.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o template.o -c template.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o template_display.o -c template_display.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o ruler_display.o -c ruler_display.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_canvas_box.o -c gap_canvas_box.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o hash.o -c hash.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_array.o -c gap_array.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o show_relationships.o -c show_relationships.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o fij.o -c fij.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o hash_lib.o -c hash_lib.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o do_fij.o -c do_fij.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o auto_assemble.o -c auto_assemble.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o dis_readings.o -c dis_readings.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o find_repeats.o -c find_repeats.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o break_contig.o -c break_contig.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o quality_plot.o -c quality_plot.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o readpair.o -c readpair.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o contig_selector.o -c contig_selector.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o complement.o -c complement.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o cs-object.o -c cs-object.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o list_proc.o -c list_proc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o dstrand.o -c dstrand.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o oligo_sel.o -c oligo_sel.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o primlib.o -c primlib.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o alter_rel.o -c alter_rel.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o restriction_enzymes.o -c restriction_enzymes.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o stop_codon.o -c stop_codon.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o assemble_direct.o -c assemble_direct.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o check_assembly.o -c check_assembly.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tagU2.o -c tagU2.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o mess.o -c mess.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o find_oligo.o -c find_oligo.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o copy_db.o -c copy_db.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o contig_order.o -c contig_order.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o clip.o -c clip.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o notes.o -c notes.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o consistency_display.o -c consistency_display.c
consistency_display.c: In function 'consistency_join':
consistency_display.c:160:15: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
    gen.data = (void *)remove_dup;
               ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o consistency_canvas_box.o -c consistency_canvas_box.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o confidence_graph.o -c confidence_graph.c
confidence_graph.c: In function 'confidence_callback':
confidence_graph.c:531:26: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
    jdata->generic.data = (void *)conf->cons_id;
                          ^
confidence_graph.c:624:37: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
        confidence_join(io, c, conf, (int)jdata->generic.data);
                                     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o reading_coverage.o -c reading_coverage.c
reading_coverage.c: In function 'reading_coverage_callback':
reading_coverage.c:552:26: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
    jdata->generic.data = (void *)rcov->cons_id;   
                          ^
reading_coverage.c:645:43: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
        reading_coverage_join(io, c, rcov, (int)jdata->generic.data);
                                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o readpair_coverage.o -c readpair_coverage.c
readpair_coverage.c: In function 'readpair_coverage_callback':
readpair_coverage.c:500:26: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
    jdata->generic.data = (void *)rcov->cons_id;
                          ^
readpair_coverage.c:594:44: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
        readpair_coverage_join(io, c, rcov, (int)jdata->generic.data);
                                            ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o strand_coverage.o -c strand_coverage.c
strand_coverage.c: In function 'strand_coverage_callback':
strand_coverage.c:503:26: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
    jdata->generic.data = (void *)scov->cons_id;
                          ^
strand_coverage.c:541:42: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
        strand_coverage_join(io, c, scov, (int)jdata->generic.data);
                                          ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o find_fragments.o -c find_fragments.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o vseqs.o -c vseqs.c
In file included from vseqs.c:3:0:
vseqs.c: In function 'new_vcontig':
vseqs.c:60:48: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      hash = Tcl_CreateHashEntry(&db->num_hash, (char *)rnum,
                                                ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2578:55: note: in definition of macro 'Tcl_CreateHashEntry'
  (*((tablePtr)->createProc))(tablePtr, (const char *)(key), newPtr)
                                                       ^
vseqs.c: In function 'new_vrseq':
vseqs.c:158:44: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
  hash = Tcl_CreateHashEntry(&vc->num_hash, (char *)(vrseq->rnum), &new);
                                            ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2578:55: note: in definition of macro 'Tcl_CreateHashEntry'
  (*((tablePtr)->createProc))(tablePtr, (const char *)(key), newPtr)
                                                       ^
vseqs.c: In function 'del_vrseq':
vseqs.c:215:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
  hash = Tcl_FindHashEntry(&vc->num_hash, (char *)(vrseq->rnum));
                                          ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2575:53: note: in definition of macro 'Tcl_FindHashEntry'
  (*((tablePtr)->findProc))(tablePtr, (const char *)(key))
                                                     ^
vseqs.c: In function 'vrseq_index2ptr':
vseqs.c:409:45: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     hash = Tcl_FindHashEntry(&vc->num_hash, (char *)num);
                                             ^
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2575:53: note: in definition of macro 'Tcl_FindHashEntry'
  (*((tablePtr)->findProc))(tablePtr, (const char *)(key))
                                                     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o legacy_f2c.o -c legacy_f2c.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o f2c.o -c f2c.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o shuffle_pads.o -c shuffle_pads.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o auto_break.o -c auto_break.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkEditor.o -c tkEditor.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkEdNames.o -c tkEdNames.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkEdUtils.o -c tkEdUtils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o edInterface.o -c edInterface.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o edUtils2.o -c edUtils2.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tagU1.o -c tagU1.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o undo.o -c undo.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o edExtend.o -c edExtend.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o edCommands.o -c edCommands.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o edMutations.o -c edMutations.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tagEditor.o -c tagEditor.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o searchUtils.o -c searchUtils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tman_interface.o -c tman_interface.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tman_display.o -c tman_display.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tman_cons.o -c tman_cons.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tman_diff.o -c tman_diff.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o contigEditor.o -c contigEditor.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o join.o -c join.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o oligo.o -c oligo.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libgap.so  -L/build/buildd/staden-2.0.0+b10/lib  gap-local.o gap-remote.o gap-if.o gap-init.o gap-dbstruct.o gap-create.o gap-error.o stack_dump.o gap-io.o IO1.o io-reg.o actf.o IO2.o seqInfo.o parse_ft.o IO3.o io_utils.o io_handle.o gap-tcl.o tk-io-reg.o gap_cli_arg.o gap_globals.o newgap_cmds.o init.o consen.o gap_hash.o qual.o qualIO.o bubbl3.o tagdb.o notedb.o active_tags.o dbcheck.o clones.o extract.o preass.o list.o reactions.o probe.o template.o template_display.o ruler_display.o gap_canvas_box.o hash.o gap_array.o show_relationships.o fij.o hash_lib.o do_fij.o auto_assemble.o dis_readings.o find_repeats.o break_contig.o quality_plot.o readpair.o contig_selector.o complement.o cs-object.o list_proc.o dstrand.o oligo_sel.o primlib.o alter_rel.o restriction_enzymes.o stop_codon.o assemble_direct.o check_assembly.o tagU2.o mess.o find_oligo.o copy_db.o contig_order.o clip.o notes.o consistency_display.o consistency_canvas_box.o confidence_graph.o reading_coverage.o readpair_coverage.o strand_coverage.o find_fragments.o vseqs.o legacy_f2c.o f2c.o shuffle_pads.o auto_break.o tkEditor.o tkEdNames.o tkEdUtils.o edInterface.o edUtils2.o tagU1.o undo.o edExtend.o edCommands.o edMutations.o tagEditor.o searchUtils.o tman_interface.o tman_display.o tman_cons.o tman_diff.o contigEditor.o join.o oligo.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lseq_utils   -ltk_utils  -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm    -lg   -lmutlib   -lmisc    -lprimer3     -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o copy_db_main.o -c copy_db_main.c
copy_db_main.c: In function 'main':
copy_db_main.c:86:2: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result]
  scanf("%c", &ans);
  ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib  -I/build/buildd/staden-2.0.0+b10/./primer3/src -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o text-io-reg.o -c text-io-reg.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o copy_db gap-local.o gap-remote.o gap-if.o gap-init.o gap-dbstruct.o gap-create.o gap-error.o stack_dump.o gap-io.o IO1.o io-reg.o actf.o copy_db.o copy_db_main.o text-io-reg.o io_utils.o io_handle.o  -lg   -ltext_utils   -lmisc  -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -ldl -lz  -lpthread -lieee -lm -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/gap4'
cd prefinish && make -f /build/buildd/staden-2.0.0+b10/./prefinish/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./prefinish SUBDIR=prefinish all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/prefinish'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish.o -c finish.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_hash.o -c finish_hash.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_long.o -c finish_long.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_main.o -c finish_main.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_utils.o -c finish_utils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_walk.o -c finish_walk.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_reverse.o -c finish_reverse.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_filter.o -c finish_filter.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o finish_pcr.o -c finish_pcr.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o dust.o -c dust.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libprefinish.so  finish.o finish_hash.o finish_long.o finish_main.o finish_utils.o finish_walk.o finish_reverse.o finish_filter.o finish_pcr.o dust.o -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -lseq_utils   -ltk_utils   -lmisc   -lgap    -lprimer3  
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o insert_size_dist.o -c insert_size_dist.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o insert_size_dist insert_size_dist.o  -lg   -lgap   -ltk_utils    -lprimer3   -lmutlib   -lseq_utils   -lmisc  -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -ldl -lz  -lpthread -lieee -lm -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   
/usr/bin/ld: warning: libtext_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so, not found (try using -rpath or -rpath-link)
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o read_size_dist.o -c read_size_dist.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o read_size_dist read_size_dist.o  -lg   -lgap   -ltk_utils    -lprimer3   -lmutlib   -lseq_utils   -lmisc  -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -ldl -lz  -lpthread -lieee -lm -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   
/usr/bin/ld: warning: libtext_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so, not found (try using -rpath or -rpath-link)
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./prefinish -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o read_conf_dist.o -c read_conf_dist.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o read_conf_dist read_conf_dist.o  -lg   -lgap   -ltk_utils    -lprimer3   -lmutlib   -lseq_utils   -lmisc  -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -ldl -lz  -lpthread -lieee -lm -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   
/usr/bin/ld: warning: libtext_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so, not found (try using -rpath or -rpath-link)
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/prefinish'
cd haplo && make -f /build/buildd/staden-2.0.0+b10/./haplo/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./haplo SUBDIR=haplo all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/haplo'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./haplo -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itk/generic -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itcl/generic -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o haplo_tcl.o -c haplo_tcl.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./haplo -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itk/generic -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itcl/generic -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o haplo_snps.o -c haplo_snps.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./haplo -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itk/generic -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itcl/generic -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o haplo_split.o -c haplo_split.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./haplo -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itk/generic -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itcl/generic -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o haplo_cons.o -c haplo_cons.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./haplo -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itk/generic -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itcl/generic -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./haplo -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itk/generic -I/build/buildd/staden-2.0.0+b10/./incrTcl-3.3cvs/itcl/generic -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libhaplo.so  haplo_tcl.o haplo_snps.o haplo_split.o haplo_cons.o -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -ltk_utils   -lmisc   -lgap  
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/haplo'
cd eba && make -f /build/buildd/staden-2.0.0+b10/./eba/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./eba SUBDIR=eba all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/eba'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./eba -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o qual.o -c qual.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./eba -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o conf.o -c conf.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o eba qual.o conf.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm      -lm 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/eba'
cd init_exp && make -f /build/buildd/staden-2.0.0+b10/./init_exp/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./init_exp SUBDIR=init_exp all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/init_exp'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./init_exp -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o init_exp.o -c init_exp.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o init_exp  init_exp.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/init_exp'
cd get_scf_field && make -f /build/buildd/staden-2.0.0+b10/./get_scf_field/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./get_scf_field SUBDIR=get_scf_field all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/get_scf_field'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./get_scf_field -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o get_scf_field.o -c get_scf_field.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o get_scf_field  get_scf_field.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm    -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz   -lmisc 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/get_scf_field'
cd spin && make -f /build/buildd/staden-2.0.0+b10/./spin/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./spin SUBDIR=spin all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/spin'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seq_reg.o -c seq_reg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seq_reg_cmds.o -c seq_reg_cmds.c
seq_reg_cmds.c: In function 'GetActiveSeqName':
seq_reg_cmds.c:919:25: warning: zero-length gnu_printf format string [-Wformat-zero-length]
  vTcl_SetResult(interp, "");
                         ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o raster_cmds.o -c raster_cmds.c
raster_cmds.c: In function 'RasterResults':
raster_cmds.c:250:9: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
  zoom = (int)gen.result;
         ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seq_raster.o -c seq_raster.c
seq_raster.c: In function 'GetRasterZoom':
seq_raster.c:1512:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
     result = (int)gen.result;
              ^
seq_raster.c: In function 'seq_raster_callback':
seq_raster.c:3012:30: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
         jdata->info.result = (void *)zoom;
                              ^
seq_raster.c:3034:24: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
   jdata->info.result = (void *)zoom;
                        ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sequtils.o -c sequtils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seq_results.o -c seq_results.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seq_sendto.o -c seq_sendto.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o spin_globals.o -c spin_globals.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seq_plot_funcs.o -c seq_plot_funcs.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqed.o -c seqed.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkSeqed.o -c tkSeqed.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkSeqedUtils.o -c tkSeqedUtils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkSeqedNames.o -c tkSeqedNames.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqed_write.o -c seqed_write.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqedInterface.o -c seqedInterface.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqed_translate.o -c seqed_translate.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqed_restriction_enzymes.o -c seqed_restriction_enzymes.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o seqed_search.o -c seqed_search.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sequence_pair_display.o -c sequence_pair_display.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o emboss_input_funcs.o -c emboss_input_funcs.c
emboss_input_funcs.c: In function 'emboss_graph_callback':
emboss_input_funcs.c:260:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
emboss_input_funcs.c: In function 'read_emboss_data_file':
emboss_input_funcs.c:402:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(line, 1024, fp);
     ^
emboss_input_funcs.c:437:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
    fscanf(fp, "##Number %d\n", &data->n_data_obj);
    ^
emboss_input_funcs.c:444:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
        fgets(line, 1024, fp);
        ^
emboss_input_funcs.c:470:6: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
      fscanf(fp, "##Number %d\n", &data->n_graph_obj);
      ^
emboss_input_funcs.c:477:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(line, 1024, fp);
   ^
emboss_input_funcs.c:518:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
   fscanf(fp, "%lf %lf\n", &pos, &p_array[i].score);
   ^
emboss_input_funcs.c: In function 'init_emboss_stick_create':
emboss_input_funcs.c:658:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(dummy1, 100, fp);
  ^
emboss_input_funcs.c:659:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(dummy1, 100, fp);
  ^
emboss_input_funcs.c:660:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(dummy1, 100, fp);
  ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o readpam.o -c readpam.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o compare_spans.o -c compare_spans.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_hash.o -c sip_hash.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_similar_spans.o -c sip_similar_spans.c
sip_similar_spans.c: In function 'similar_spans_callback':
sip_similar_spans.c:289:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_find_identity.o -c sip_find_identity.c
sip_find_identity.c: In function 'identities_callback':
sip_find_identity.c:210:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_quick_scan.o -c sip_quick_scan.c
sip_quick_scan.c: In function 'quick_scan_callback':
sip_quick_scan.c:234:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_align.o -c sip_align.c
sip_align.c: In function 'align_callback':
sip_align.c:181:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_globals.o -c sip_globals.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_cmds.o -c sip_cmds.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_results.o -c sip_results.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o rescan_matches.o -c rescan_matches.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o probs.o -c probs.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sim.o -c sim.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sip_sim.o -c sip_sim.c
sip_sim.c: In function 'sim_callback':
sip_sim.c:197:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o init.o -c init.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_globals.o -c nip_globals.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_cmds.o -c nip_cmds.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_base_comp.o -c nip_base_comp.c
nip_base_comp.c: In function 'plot_base_comp_callback':
nip_base_comp.c:183:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_gene_search.o -c nip_gene_search.c
nip_gene_search.c: In function 'plot_gene_search_callback':
nip_gene_search.c:206:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_trna_search.o -c nip_trna_search.c
nip_trna_search.c: In function 'trna_search_callback':
nip_trna_search.c:173:24: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
   jdata->info.result = (void *)id;
                        ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o codon_content.o -c codon_content.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_stop_codon.o -c nip_stop_codon.c
nip_stop_codon.c: In function 'nip_stop_codons_callback':
nip_stop_codon.c:195:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o trna_search.o -c trna_search.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o splice_search.o -c splice_search.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_splice_search.o -c nip_splice_search.c
nip_splice_search.c: In function 'splice_search_callback':
nip_splice_search.c:183:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
      jdata->info.result = (void *)id;
                           ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_string_search.o -c nip_string_search.c
nip_string_search.c: In function 'nip_string_search_callback':
nip_string_search.c:170:24: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
   jdata->info.result = (void *)id;
                        ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_wtmatrix_search.o -c nip_wtmatrix_search.c
nip_wtmatrix_search.c: In function 'nip_wtmatrix_search_callback':
nip_wtmatrix_search.c:167:24: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
   jdata->info.result = (void *)id;
                        ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_restriction_enzymes.o -c nip_restriction_enzymes.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o nip_canvas_box.o -c nip_canvas_box.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o dinuc_freqs.o -c dinuc_freqs.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./spin -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix"  -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libspin.so  seq_reg.o seq_reg_cmds.o raster_cmds.o seq_raster.o sequtils.o seq_results.o seq_sendto.o spin_globals.o seq_plot_funcs.o seqed.o tkSeqed.o tkSeqedUtils.o tkSeqedNames.o seqed_write.o seqedInterface.o seqed_translate.o seqed_restriction_enzymes.o seqed_search.o sequence_pair_display.o emboss_input_funcs.o readpam.o compare_spans.o sip_hash.o sip_similar_spans.o sip_find_identity.o sip_quick_scan.o sip_align.o sip_globals.o sip_cmds.o sip_results.o rescan_matches.o probs.o sim.o sip_sim.o init.o nip_globals.o nip_cmds.o nip_base_comp.o nip_gene_search.o nip_trna_search.o codon_content.o nip_stop_codon.o trna_search.o splice_search.o nip_splice_search.o nip_string_search.o nip_wtmatrix_search.o nip_restriction_enzymes.o nip_canvas_box.o dinuc_freqs.o -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm   -ltk_utils   -lseq_utils   -lmisc 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/spin'
cd vector_clip && make -f /build/buildd/staden-2.0.0+b10/./vector_clip/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./vector_clip SUBDIR=vector_clip all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/vector_clip'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./vector_clip -I/usr/include -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o vector_clip.o -c vector_clip.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o vector_clip  vector_clip.o  -lseq_utils   -ltext_utils    -lmisc  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   -lm    
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/vector_clip'
cd tracediff && make -f /build/buildd/staden-2.0.0+b10/./tracediff/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./tracediff SUBDIR=tracediff all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/tracediff'
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./tracediff -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o main.o -c main.cpp
g++ -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o tracediff  main.o  -lmutlib  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lseq_utils   -ltext_utils   -lmisc 	  -lm   
/usr/bin/ld: warning: libtk_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libmutlib.so, not found (try using -rpath or -rpath-link)
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/tracediff'
cd screen_seq && make -f /build/buildd/staden-2.0.0+b10/./screen_seq/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./screen_seq SUBDIR=screen_seq all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/screen_seq'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./screen_seq -I/build/buildd/staden-2.0.0+b10/./text_utils -I/usr/include -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o screen_seq.o -c screen_seq.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o screen_seq  screen_seq.o  -lseq_utils   -ltext_utils    -lmisc  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/screen_seq'
cd qclip && make -f /build/buildd/staden-2.0.0+b10/./qclip/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./qclip SUBDIR=qclip all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/qclip'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./qclip -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o qclip.o -c qclip.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./qclip -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o consen.o -c consen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./qclip -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o seqInfo.o -c seqInfo.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o qclip qclip.o consen.o seqInfo.o  -ltext_utils  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/qclip'
cd polyA_clip && make -f /build/buildd/staden-2.0.0+b10/./polyA_clip/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./polyA_clip SUBDIR=polyA_clip all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/polyA_clip'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./polyA_clip -I/usr/include -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o polyA_clip.o -c polyA_clip.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./polyA_clip -I/usr/include -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o seqInfo.o -c seqInfo.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o polyA_clip polyA_clip.o seqInfo.o  -lseq_utils   -ltext_utils  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm     
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/polyA_clip'
cd stops && make -f /build/buildd/staden-2.0.0+b10/./stops/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./stops SUBDIR=stops all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/stops'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./stops -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o stops.o -c stops.c
stops.c: In function 'create_peaks':
stops.c:235:26: warning: implicit declaration of function 'xcalloc' [-Wimplicit-function-declaration]
     if (!(peaks = (int *)xcalloc(r->NBases, sizeof(int))))
                          ^
stops.c:235:19: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Function `xcalloc' implicitly converted to pointer at stops.c:235
     if (!(peaks = (int *)xcalloc(r->NBases, sizeof(int))))
                   ^
stops.c: In function 'find_stops':
stops.c:276:5: warning: implicit declaration of function 'xfree' [-Wimplicit-function-declaration]
     xfree(peaks);
     ^
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o stops stops.o  -ltext_utils  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lmisc   -lm     -lm 
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/stops'
cd pregap4 && make -f /build/buildd/staden-2.0.0+b10/./pregap4/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./pregap4 SUBDIR=pregap4 all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/pregap4'
/build/buildd/staden-2.0.0+b10/./pregap4/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./pregap4/../global.mk:233: warning: ignoring old recipe for target 'clean'
Nothing to build for Pregap4.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/pregap4'
cd make_weights && make -f /build/buildd/staden-2.0.0+b10/./make_weights/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./make_weights SUBDIR=make_weights all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/make_weights'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./make_weights -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./text_utils -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o make_weights.o -c make_weights.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o make_weights make_weights.o  -lseq_utils   -ltext_utils   -lmisc   -lm  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm    
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/make_weights'
cd find_renz && make -f /build/buildd/staden-2.0.0+b10/./find_renz/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./find_renz SUBDIR=find_renz all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/find_renz'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./find_renz -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o find_renz.o -c find_renz.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o find_renz  find_renz.o  -lseq_utils   -ltext_utils   -lmisc  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm    
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/find_renz'
cd spin_emboss && make -f /build/buildd/staden-2.0.0+b10/./spin_emboss/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./spin_emboss SUBDIR=spin_emboss all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/spin_emboss'
/build/buildd/staden-2.0.0+b10/./spin_emboss/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./spin_emboss/../global.mk:233: warning: ignoring old recipe for target 'clean'
Nothing to build for spin_emboss.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/spin_emboss'
cd copy_reads && make -f /build/buildd/staden-2.0.0+b10/./copy_reads/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./copy_reads SUBDIR=copy_reads all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/copy_reads'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./copy_reads -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o copy_reads_globals.o -c copy_reads_globals.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./copy_reads -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o copy_reads.o -c copy_reads.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./copy_reads -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./copy_reads -I/build/buildd/staden-2.0.0+b10/./Misc -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libcopy_reads.so  copy_reads_globals.o copy_reads.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -lseq_utils   -ltk_utils   -lmisc   -lgap   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/copy_reads'
cd hetins && make -f /build/buildd/staden-2.0.0+b10/./hetins/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./hetins SUBDIR=hetins all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/hetins'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./hetins -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include  -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o hetins.o -c hetins.c
hetins.c: In function 'smoothe':
hetins.c:208:30: warning: implicit declaration of function 'xcalloc' [-Wimplicit-function-declaration]
   if (NULL == (a = (double *)xcalloc(l, sizeof(double)))) {
                              ^
hetins.c:208:20: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
Function `xcalloc' implicitly converted to pointer at hetins.c:208
   if (NULL == (a = (double *)xcalloc(l, sizeof(double)))) {
                    ^
hetins.c:229:3: warning: implicit declaration of function 'xfree' [-Wimplicit-function-declaration]
   xfree(a);
   ^
hetins.c: In function 'heterozygous_indels':
hetins.c:332:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (signal = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                           ^
hetins.c:333:29: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (max_peak = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                             ^
hetins.c:334:32: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (good_signal = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                                ^
hetins.c:335:37: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (good_signal_grad = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                                     ^
hetins.c:336:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (good_signal_grad_grad = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                                          ^
hetins.c:337:29: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (envelope = (double *)xcalloc(r->NPoints, sizeof(double))))goto bail_out;
                             ^
hetins.c:338:36: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (envelope_signal = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                                    ^
hetins.c:339:32: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast]
     if (NULL == (half_signal = (double *)xcalloc(good_bases, sizeof(double))))goto bail_out;
                                ^
g++ -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o hetins  hetins.o  -lmisc  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/hetins'
cd mutscan && make -f /build/buildd/staden-2.0.0+b10/./mutscan/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./mutscan SUBDIR=mutscan all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/mutscan'
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./mutscan -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o main.o -c main.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./mutscan -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o pathutil.o -c pathutil.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./mutscan -I/build/buildd/staden-2.0.0+b10/./Misc -I/usr/include -I/build/buildd/staden-2.0.0+b10/. -I/build/buildd/staden-2.0.0+b10/./mutlib -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o stringlist.o -c stringlist.cpp
g++ -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o mutscan  main.o pathutil.o stringlist.o  -lmutlib  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -lseq_utils   -ltext_utils   -lmisc   -lm   
/usr/bin/ld: warning: libtk_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libmutlib.so, not found (try using -rpath or -rpath-link)
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/mutscan'
cd convert && make -f /build/buildd/staden-2.0.0+b10/./convert/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./convert SUBDIR=convert all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/convert'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o list.o -c list.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o main.o -c main.c
main.c: In function 'get_db':
main.c:87:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(name, sizeof(IOString), stdin);
     ^
main.c:92:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(version, sizeof(IOString), stdin);
     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o dapIO.o -c dapIO.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o dapDB.o -c dapDB.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o bapIO.o -c bapIO.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o bapDB.o -c bapDB.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o gapDB.o -c gapDB.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o process.o -c process.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./convert -I/build/buildd/staden-2.0.0+b10/./Misc  -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/build/buildd/staden-2.0.0+b10/./gap4 -I/build/buildd/staden-2.0.0+b10/./g -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION=""  -o flat_sd.o -c flat_sd.c
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o staden_convert list.o main.o dapIO.o dapDB.o bapIO.o bapDB.o gapDB.o process.o flat_sd.o   -lm     -lgap   -lg    -lprimer3   -lmutlib   -ltk_utils   -lseq_utils   -lmisc  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz
/usr/bin/ld: warning: libtext_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so, not found (try using -rpath or -rpath-link)
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/convert'
cd gap5 && make -f /build/buildd/staden-2.0.0+b10/./gap5/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./gap5 SUBDIR=gap5 all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/gap5'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_iface_g.o -c tg_iface_g.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o b+tree2.o -c b+tree2.c
b+tree2.c: In function 'btree_size':
b+tree2.c:720:18: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
     c = n->used; write(1, &c, 1);
                  ^
b+tree2.c:721:18: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
     c = n->leaf; write(1, &c, 1);
                  ^
b+tree2.c:726:13: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
      c = 0; write(1, &c, 1);
             ^
b+tree2.c:727:6: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
      write(1, n->keys[i], strlen(n->keys[i])+1);
      ^
b+tree2.c:733:6: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
      write(1, &c, 1), sz++;
      ^
b+tree2.c:736:6: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
      write(1, cp1, strlen(cp1)+1);
      ^
b+tree2.c:744:2: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
  write(1, &n->chld[i], 4);
  ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o hache_table.o -c hache_table.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_gio.o -c tg_gio.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_cache.o -c tg_cache.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_contig.o -c tg_contig.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_sequence.o -c tg_sequence.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_track.o -c tg_track.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_bin.o -c tg_bin.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_utils.o -c tg_utils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_register.o -c tg_register.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_tracks.o -c tg_tracks.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_anno.o -c tg_anno.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_library.o -c tg_library.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_scaffold.o -c tg_scaffold.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_check.o -c tg_check.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o actf.o -c actf.c
actf.c: In function 'actf_lock':
actf.c:265:5: warning: ignoring return value of 'write', declared with attribute warn_unused_result [-Wunused-result]
     write(fd, content, namelen + strlen(content + namelen));
     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o zfio.o -c zfio.c
zfio.c: In function 'zfopen':
zfio.c:80:2: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
  fread(magic, 1, 2, zf->fp);
  ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_cli_arg.o -c gap_cli_arg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_tcl.o -c tg_tcl.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_index.o -c tg_index.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o newgap5_cmds.o -c newgap5_cmds.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap4_compat.o -c gap4_compat.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_hash.o -c gap_hash.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o hash_lib.o -c hash_lib.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o qual.o -c qual.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o qualIO.o -c qualIO.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_globals.o -c gap_globals.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tagdb.o -c tagdb.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o init.o -c init.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o notedb.o -c notedb.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o active_tags.o -c active_tags.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o list_proc.o -c list_proc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap-error.o -c gap-error.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o stack_dump.o -c stack_dump.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tk-io-reg.o -c tk-io-reg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkAppInit.o -c tkAppInit.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o consen.o -c consen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o contig_selector.o -c contig_selector.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o cs-object.o -c cs-object.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o find_repeats.o -c find_repeats.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o readpair.o -c readpair.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o check_assembly.o -c check_assembly.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o consensus.o -c consensus.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o read_depth.o -c read_depth.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_range.o -c gap_range.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o template_display.o -c template_display.c
template_display.c: In function 'configure_template':
template_display.c:366:20: warning: implicit declaration of function 'isspace' [-Wimplicit-function-declaration]
      while (*cp && isspace(*cp))
                    ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o depth_track.o -c depth_track.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o template_draw.o -c template_draw.c
template_draw.c:22:0: warning: "ckfree" redefined
 #    define ckfree(x) free((x))
 ^
In file included from template_draw.h:18:0,
                 from template_draw.c:9:
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2474:0: note: this is the location of the previous definition
 #   define ckfree(x) \
 ^
template_draw.c:23:0: warning: "ckalloc" redefined
 #    define ckalloc(x) malloc((x))
 ^
In file included from template_draw.h:18:0,
                 from template_draw.c:9:
/usr/include/tcl8.6/tcl-private/generic/tcl.h:2472:0: note: this is the location of the previous definition
 #   define ckalloc(x) \
 ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o quality_plot.o -c quality_plot.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tag_plot.o -c tag_plot.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o fij.o -c fij.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o do_fij.o -c do_fij.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o break_contig.o -c break_contig.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o dis_readings.o -c dis_readings.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o export_contigs.o -c export_contigs.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o find_oligo.o -c find_oligo.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o import_gff.o -c import_gff.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o shuffle_pads.o -c shuffle_pads.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o restriction_enzymes.o -c restriction_enzymes.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o gap_canvas_box.o -c gap_canvas_box.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o contig_extend.o -c contig_extend.c
contig_extend.c: In function 'contig_trim':
contig_extend.c:455:6: warning: implicit declaration of function 'contig_visible_start' [-Wimplicit-function-declaration]
      contig_visible_start(io, contig[i], CITER_CSTART);
      ^
contig_extend.c:456:6: warning: implicit declaration of function 'contig_visible_end' [-Wimplicit-function-declaration]
      contig_visible_end(io, contig[i], CITER_CEND);
      ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o auto_break.o -c auto_break.c
auto_break.c: In function 'filter_consen_diffs':
auto_break.c:611:6: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration]
  if (toupper(in[i]) == cons[i])
      ^
auto_break.c: In function 'suspect_joins':
auto_break.c:645:5: warning: implicit declaration of function 'consensus_valid_range' [-Wimplicit-function-declaration]
     consensus_valid_range(io, contig, &cstart, &cend);
     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-files.o -c g-files.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-db.o -c g-db.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-struct.o -c g-struct.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-error.o -c g-error.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-alloc.o -c g-alloc.c
g-alloc.c: In function 'heap_largest_check':
g-alloc.c:707:2: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
  read(h->fd, &p[0], 8*NPOOLS);
  ^
g-alloc.c:741:6: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
      read(h->fd, &prev, 8);
      ^
g-alloc.c:742:6: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
      read(h->fd, &next, 8);
      ^
g-alloc.c:771:6: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
      read(h->fd, &len2, 4);
      ^
g-alloc.c: In function 'heap_check':
g-alloc.c:862:2: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
  read(h->fd, &p[0], 8*NPOOLS);
  ^
g-alloc.c:927:6: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
      read(h->fd, &prev, 8);
      ^
g-alloc.c:928:6: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
      read(h->fd, &next, 8);
      ^
g-alloc.c:964:6: warning: ignoring return value of 'read', declared with attribute warn_unused_result [-Wunused-result]
      read(h->fd, &len2, 4);
      ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-io.o -c g-io.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-connect.o -c g-connect.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o g-request.o -c g-request.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o editor_view.o -c editor_view.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o editor_join.o -c editor_join.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o editor_search.o -c editor_search.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkEdNames.o -c tkEdNames.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tkEditor.o -c tkEditor.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tman_interface.o -c tman_interface.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tman_display.o -c tman_display.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o primlib.o -c primlib.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o editor_oligo.o -c editor_oligo.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o tg_index_common.o -c tg_index_common.c
tg_index_common.c: In function 'create_new_contig':
tg_index_common.c:803:2: warning: implicit declaration of function 'contig_visible_start' [-Wimplicit-function-declaration]
  contig_visible_start(io, (*c)->rec, CITER_CSTART);
  ^
tg_index_common.c:804:2: warning: implicit declaration of function 'contig_visible_end' [-Wimplicit-function-declaration]
  contig_visible_end  (io, (*c)->rec, CITER_CEND);
  ^
tg_index_common.c: In function 'bttmp_file_sort':
tg_index_common.c:167:5: warning: ignoring return value of 'tmpnam', declared with attribute warn_unused_result [-Wunused-result]
     tmpnam(new_tmp);
     ^
tg_index_common.c:173:5: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result]
     system(buf);
     ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o baf.o -c baf.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o maq.o -c maq.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o maqmap.o -c maqmap.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sam_index.o -c sam_index.c
sam_index.c: In function 'parse_sam_or_bam':
sam_index.c:2268:6: warning: implicit declaration of function 'contig_visible_start' [-Wimplicit-function-declaration]
      contig_visible_start(io, bio->c->rec, CITER_CSTART);
      ^
sam_index.c:2269:6: warning: implicit declaration of function 'contig_visible_end' [-Wimplicit-function-declaration]
      contig_visible_end  (io, bio->c->rec, CITER_CEND);
      ^
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o sam_pileup.o -c sam_pileup.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o ace.o -c ace.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o caf.o -c caf.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o fasta.o -c fasta.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o afg.o -c afg.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -o depad_seq_tree.o -c depad_seq_tree.c
gcc -shared -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC  -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -DUSE_NON_CONST  -I/build/buildd/staden-2.0.0+b10/./gap5 -I/build/buildd/staden-2.0.0+b10/./Misc -I"/usr/include/tcl8.6/tk-private/generic" -I"/usr/include/tcl8.6/tk-private/unix" -I"/usr/include/tcl8.6/tk-private/generic/ttk" -I"/usr/include/tcl8.6/tcl-private/generic" -I"/usr/include/tcl8.6/tcl-private/unix" -I/usr/include -I/build/buildd/staden-2.0.0+b10/./tk_utils -I/build/buildd/staden-2.0.0+b10/./seq_utils -I/build/buildd/staden-2.0.0+b10/./primer3/src    -I/build/buildd/staden-2.0.0+b10  -DSVN_VERSION="" -fPIC -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o /build/buildd/staden-2.0.0+b10/lib/libgap5.so  -L/build/buildd/staden-2.0.0+b10/lib newgap5_cmds.o gap4_compat.o gap_hash.o hash_lib.o qual.o qualIO.o gap_globals.o tagdb.o init.o notedb.o active_tags.o list_proc.o gap-error.o stack_dump.o tk-io-reg.o tkAppInit.o consen.o contig_selector.o cs-object.o find_repeats.o readpair.o check_assembly.o consensus.o read_depth.o gap_range.o template_display.o depth_track.o template_draw.o quality_plot.o tag_plot.o fij.o do_fij.o break_contig.o dis_readings.o export_contigs.o find_oligo.o import_gff.o shuffle_pads.o restriction_enzymes.o gap_canvas_box.o contig_extend.o auto_break.o g-files.o g-db.o g-struct.o g-error.o g-alloc.o g-io.o g-connect.o g-request.o tg_iface_g.o b+tree2.o hache_table.o tg_gio.o tg_cache.o tg_contig.o tg_sequence.o tg_track.o tg_bin.o tg_utils.o tg_register.o tg_tracks.o tg_anno.o tg_library.o tg_scaffold.o tg_check.o actf.o zfio.o gap_cli_arg.o tg_tcl.o editor_view.o editor_join.o editor_search.o tkEdNames.o tkEditor.o tman_interface.o tman_display.o primlib.o editor_oligo.o tg_index_common.o baf.o maq.o maqmap.o sam_index.o sam_pileup.o ace.o caf.o fasta.o afg.o depad_seq_tree.o -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lseq_utils   -ltk_utils  -lz -llzma -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -lseq_utils    -lprimer3   -lmisc  
tg_index_common.o: In function `bttmp_file_open':
/build/buildd/staden-2.0.0+b10/gap5/tg_index_common.c:102: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
gcc -L/build/buildd/staden-2.0.0+b10/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,--export-dynamic  -Wl,-rpath,/usr/lib/staden -o tg_index.bin tg_iface_g.o b+tree2.o hache_table.o tg_gio.o tg_cache.o tg_contig.o tg_sequence.o tg_track.o tg_bin.o tg_utils.o tg_register.o tg_tracks.o tg_anno.o tg_library.o tg_scaffold.o tg_check.o actf.o zfio.o gap_cli_arg.o tg_tcl.o tg_index.o  -lgap5   -lprimer3  -lz -llzma  -ltk_utils   -lseq_utils  -L/usr/lib/x86_64-linux-gnu -ltk8.6 -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -lX11 -lXss -lXext -lXft -lfontconfig -lfreetype    -lpthread -ldl -lz  -lpthread -lieee -lm  -lmisc  -L/usr/lib/x86_64-linux-gnu -lstaden-read -Wl,-Bsymbolic-functions -Wl,-z,relro -lm -lpthread   -lcurl -lz  -lm   
/usr/bin/ld: warning: libtext_utils.so, needed by /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so, not found (try using -rpath or -rpath-link)
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/gap5'
cd scripts && make -f /build/buildd/staden-2.0.0+b10/./scripts/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./scripts SUBDIR=scripts all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/scripts'
/build/buildd/staden-2.0.0+b10/./scripts/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./scripts/../global.mk:233: warning: ignoring old recipe for target 'clean'
Nothing to build for scripts.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/scripts'
cd data && make -f /build/buildd/staden-2.0.0+b10/./data/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./data SUBDIR=data all
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10/data'
/build/buildd/staden-2.0.0+b10/./data/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./data/../global.mk:233: warning: ignoring old recipe for target 'clean'
Nothing to build for data.
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10/data'
make[1]: Leaving directory '/build/buildd/staden-2.0.0+b10'
   dh_auto_test
 /usr/bin/fakeroot debian/rules binary
dh binary
   dh_testroot
   dh_prep
   debian/rules override_dh_auto_install
make[1]: Entering directory '/build/buildd/staden-2.0.0+b10'
dh_auto_install
make[2]: Entering directory '/build/buildd/staden-2.0.0+b10'
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/doc
mkdir -p /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/man
cp shlib.conf /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp ./staden.profile /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden
make  JOB=install
make[3]: Entering directory '/build/buildd/staden-2.0.0+b10'
cd Misc && make -f /build/buildd/staden-2.0.0+b10/./Misc/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./Misc SUBDIR=Misc install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/Misc'
cp /build/buildd/staden-2.0.0+b10/lib/libmisc.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/Misc'
cd tk_utils && make -f /build/buildd/staden-2.0.0+b10/./tk_utils/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./tk_utils SUBDIR=tk_utils install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/tk_utils'
cp /build/buildd/staden-2.0.0+b10/lib/libtk_utils.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/tk_utils
cp /build/buildd/staden-2.0.0+b10/./tk_utils/*.tcl /build/buildd/staden-2.0.0+b10/./tk_utils/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/tk_utils
cp /build/buildd/staden-2.0.0+b10/./tk_utils/stash /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
cp /build/buildd/staden-2.0.0+b10/./tk_utils/2bars_*.bmp /build/buildd/staden-2.0.0+b10/./tk_utils/help_config /build/buildd/staden-2.0.0+b10/./tk_utils/tk_utilsrc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/tk_utils'
cd text_utils && make -f /build/buildd/staden-2.0.0+b10/./text_utils/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./text_utils SUBDIR=text_utils install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/text_utils'
cp /build/buildd/staden-2.0.0+b10/lib/libtext_utils.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/text_utils'
cd seq_utils && make -f /build/buildd/staden-2.0.0+b10/./seq_utils/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./seq_utils SUBDIR=seq_utils install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/seq_utils'
cp /build/buildd/staden-2.0.0+b10/lib/libseq_utils.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
cp /build/buildd/staden-2.0.0+b10/./seq_utils/align_lib_nuc_matrix /build/buildd/staden-2.0.0+b10/./seq_utils/nuc_matrix /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/seq_utils'
cd mutlib && make -f /build/buildd/staden-2.0.0+b10/./mutlib/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./mutlib SUBDIR=mutlib install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/mutlib'
cp /build/buildd/staden-2.0.0+b10/lib/libmutlib.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/mutlib'
cd abi && make -f /build/buildd/staden-2.0.0+b10/./abi/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./abi SUBDIR=abi install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/abi'
cp getABISampleName getABIcomment getABIdate getABIfield /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/abi'
cd alf && make -f /build/buildd/staden-2.0.0+b10/./alf/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./alf SUBDIR=alf install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/alf'
cp alfsplit /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/alf'
cd g && make -f /build/buildd/staden-2.0.0+b10/./g/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./g SUBDIR=g install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/g'
cp /build/buildd/staden-2.0.0+b10/lib/libg.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/g'
cd trev && make -f /build/buildd/staden-2.0.0+b10/./trev/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./trev SUBDIR=trev install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/trev'
install trev /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/trev
cp /build/buildd/staden-2.0.0+b10/./trev/trev.tcl /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/trev
cp /build/buildd/staden-2.0.0+b10/./trev/trevrc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/trev'
cd primer3 && make -f /build/buildd/staden-2.0.0+b10/./primer3/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./primer3 SUBDIR=primer3 install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/primer3'
make[4]: Nothing to be done for 'install'.
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/primer3'
cd primer3/src && make -f /build/buildd/staden-2.0.0+b10/./primer3/src/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./primer3/src SUBDIR=primer3/src install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/primer3/src'
cp /build/buildd/staden-2.0.0+b10/lib/libprimer3.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/primer3/src'
cd gap4 && make -f /build/buildd/staden-2.0.0+b10/./gap4/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./gap4 SUBDIR=gap4 install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/gap4'
cp copy_db /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
install gap4 /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/gap
cp /build/buildd/staden-2.0.0+b10/./gap4/*.tcl /build/buildd/staden-2.0.0+b10/./gap4/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/gap
cp /build/buildd/staden-2.0.0+b10/lib/libgap.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
cp /build/buildd/staden-2.0.0+b10/./gap4/gaprc /build/buildd/staden-2.0.0+b10/./gap4/gaprc_menu_full /build/buildd/staden-2.0.0+b10/./gap4/gaprc_menu_mito /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./gap4/GTAGDB /build/buildd/staden-2.0.0+b10/./gap4/NOTEDB /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./gap4/cap2rc /build/buildd/staden-2.0.0+b10/./gap4/cap3rc /build/buildd/staden-2.0.0+b10/./gap4/fak2rc /build/buildd/staden-2.0.0+b10/./gap4/phraprc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./gap4/*.bitmap /build/buildd/staden-2.0.0+b10/./gap4/*.gif /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/gap4'
cd prefinish && make -f /build/buildd/staden-2.0.0+b10/./prefinish/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./prefinish SUBDIR=prefinish install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/prefinish'
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/prefinish
cp /build/buildd/staden-2.0.0+b10/./prefinish/*.tcl /build/buildd/staden-2.0.0+b10/./prefinish/*.itcl /build/buildd/staden-2.0.0+b10/./prefinish/*.itk /build/buildd/staden-2.0.0+b10/./prefinish/help /build/buildd/staden-2.0.0+b10/./prefinish/args.template /build/buildd/staden-2.0.0+b10/./prefinish/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/prefinish
cp /build/buildd/staden-2.0.0+b10/./prefinish/config.prefinish /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/prefinish
cp /build/buildd/staden-2.0.0+b10/lib/libprefinish.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
install prefinish /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
cp /build/buildd/staden-2.0.0+b10/./prefinish/finish_sanger /build/buildd/staden-2.0.0+b10/./prefinish/finish_cDNA /build/buildd/staden-2.0.0+b10/./prefinish/finish_cDNA_ends_only \
    /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/prefinish/rules
cp /build/buildd/staden-2.0.0+b10/./prefinish/rules/*.rule /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/prefinish/rules
cp /build/buildd/staden-2.0.0+b10/./prefinish/config.prefinish /build/buildd/staden-2.0.0+b10/./prefinish/prefinishrc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/prefinish'
cd haplo && make -f /build/buildd/staden-2.0.0+b10/./haplo/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./haplo SUBDIR=haplo install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/haplo'
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/haplo
cp /build/buildd/staden-2.0.0+b10/./haplo/*.tcl /build/buildd/staden-2.0.0+b10/./haplo/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/haplo
cp /build/buildd/staden-2.0.0+b10/lib/libhaplo.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
cp /build/buildd/staden-2.0.0+b10/./haplo/haplorc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/haplo'
cd eba && make -f /build/buildd/staden-2.0.0+b10/./eba/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./eba SUBDIR=eba install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/eba'
cp eba /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/eba'
cd init_exp && make -f /build/buildd/staden-2.0.0+b10/./init_exp/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./init_exp SUBDIR=init_exp install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/init_exp'
cp init_exp /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/init_exp'
cd get_scf_field && make -f /build/buildd/staden-2.0.0+b10/./get_scf_field/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./get_scf_field SUBDIR=get_scf_field install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/get_scf_field'
cp get_scf_field /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/get_scf_field'
cd spin && make -f /build/buildd/staden-2.0.0+b10/./spin/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./spin SUBDIR=spin install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/spin'
install spin /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/spin
cp /build/buildd/staden-2.0.0+b10/./spin/*.tcl /build/buildd/staden-2.0.0+b10/./spin/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/spin
cp /build/buildd/staden-2.0.0+b10/lib/libspin.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
cp /build/buildd/staden-2.0.0+b10/./spin/*.wts /build/buildd/staden-2.0.0+b10/./spin/niprc /build/buildd/staden-2.0.0+b10/./spin/siprc /build/buildd/staden-2.0.0+b10/./spin/spinrc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/spin'
cd vector_clip && make -f /build/buildd/staden-2.0.0+b10/./vector_clip/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./vector_clip SUBDIR=vector_clip install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/vector_clip'
cp vector_clip /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/vector_clip'
cd tracediff && make -f /build/buildd/staden-2.0.0+b10/./tracediff/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./tracediff SUBDIR=tracediff install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/tracediff'
cp tracediff /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/tracediff'
cd screen_seq && make -f /build/buildd/staden-2.0.0+b10/./screen_seq/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./screen_seq SUBDIR=screen_seq install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/screen_seq'
cp screen_seq /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/screen_seq'
cd qclip && make -f /build/buildd/staden-2.0.0+b10/./qclip/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./qclip SUBDIR=qclip install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/qclip'
cp qclip /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/qclip'
cd polyA_clip && make -f /build/buildd/staden-2.0.0+b10/./polyA_clip/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./polyA_clip SUBDIR=polyA_clip install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/polyA_clip'
cp polyA_clip /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/polyA_clip'
cd stops && make -f /build/buildd/staden-2.0.0+b10/./stops/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./stops SUBDIR=stops install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/stops'
cp stops /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/stops'
cd pregap4 && make -f /build/buildd/staden-2.0.0+b10/./pregap4/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./pregap4 SUBDIR=pregap4 install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/pregap4'
/build/buildd/staden-2.0.0+b10/./pregap4/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./pregap4/../global.mk:233: warning: ignoring old recipe for target 'clean'
install pregap4 /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin/pregap4
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4
cp /build/buildd/staden-2.0.0+b10/./pregap4/*.tcl /build/buildd/staden-2.0.0+b10/./pregap4/widget_licence /build/buildd/staden-2.0.0+b10/./pregap4/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4/modules
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4/templates
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4/naming_schemes
cp /build/buildd/staden-2.0.0+b10/./pregap4/modules/*.p4m /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4/modules
cp /build/buildd/staden-2.0.0+b10/./pregap4/templates/*.p4t /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4/templates
cp: cannot stat '/build/buildd/staden-2.0.0+b10/./pregap4/templates/*.p4t': No such file or directory
/build/buildd/staden-2.0.0+b10/./pregap4/Makefile:35: recipe for target 'install' failed
make[4]: [install] Error 1 (ignored)
cp /build/buildd/staden-2.0.0+b10/./pregap4/naming_schemes/*.p4t /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/pregap4/naming_schemes
cp /build/buildd/staden-2.0.0+b10/./pregap4/pregap4rc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/pregap4'
cd make_weights && make -f /build/buildd/staden-2.0.0+b10/./make_weights/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./make_weights SUBDIR=make_weights install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/make_weights'
cp make_weights /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/make_weights'
cd find_renz && make -f /build/buildd/staden-2.0.0+b10/./find_renz/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./find_renz SUBDIR=find_renz install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/find_renz'
cp find_renz /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/find_renz'
cd spin_emboss && make -f /build/buildd/staden-2.0.0+b10/./spin_emboss/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./spin_emboss SUBDIR=spin_emboss install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/spin_emboss'
/build/buildd/staden-2.0.0+b10/./spin_emboss/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./spin_emboss/../global.mk:233: warning: ignoring old recipe for target 'clean'
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/spin_emboss
cp /build/buildd/staden-2.0.0+b10/./spin_emboss/*.tcl /build/buildd/staden-2.0.0+b10/./spin_emboss/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/spin_emboss
cp /build/buildd/staden-2.0.0+b10/./spin_emboss/create_emboss_files /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/spin_emboss/acdtcl
cp /build/buildd/staden-2.0.0+b10/./spin_emboss/acdtcl/* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/spin_emboss/acdtcl
cp: cannot stat '/build/buildd/staden-2.0.0+b10/./spin_emboss/acdtcl/*': No such file or directory
/build/buildd/staden-2.0.0+b10/./spin_emboss/Makefile:26: recipe for target 'install' failed
make[4]: [install] Error 1 (ignored)
cp /build/buildd/staden-2.0.0+b10/./spin_emboss/emboss_menu /build/buildd/staden-2.0.0+b10/./spin_emboss/spin_embossrc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/spin_emboss'
cd copy_reads && make -f /build/buildd/staden-2.0.0+b10/./copy_reads/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./copy_reads SUBDIR=copy_reads install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/copy_reads'
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/copy_reads
install copy_reads /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
cp /build/buildd/staden-2.0.0+b10/./copy_reads/copy_reads.tcl /build/buildd/staden-2.0.0+b10/./copy_reads/copy_reads_main.tcl /build/buildd/staden-2.0.0+b10/./copy_reads/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/copy_reads
cp /build/buildd/staden-2.0.0+b10/lib/libcopy_reads.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
cp /build/buildd/staden-2.0.0+b10/./copy_reads/copy_readsrc /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/copy_reads'
cd hetins && make -f /build/buildd/staden-2.0.0+b10/./hetins/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./hetins SUBDIR=hetins install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/hetins'
cp hetins /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/hetins'
cd mutscan && make -f /build/buildd/staden-2.0.0+b10/./mutscan/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./mutscan SUBDIR=mutscan install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/mutscan'
cp mutscan /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/mutscan'
cd convert && make -f /build/buildd/staden-2.0.0+b10/./convert/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./convert SUBDIR=convert install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/convert'
cp staden_convert /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/convert'
cd gap5 && make -f /build/buildd/staden-2.0.0+b10/./gap5/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./gap5 SUBDIR=gap5 install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/gap5'
install gap5 /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/gap5
cp /build/buildd/staden-2.0.0+b10/./gap5/*.tcl /build/buildd/staden-2.0.0+b10/./gap5/tclIndex /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/gap5
cp /build/buildd/staden-2.0.0+b10/./gap5/../gap4/acd2tag.tcl /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/tcl/gap5
cp /build/buildd/staden-2.0.0+b10/./gap5/gap5rc /build/buildd/staden-2.0.0+b10/./gap5/gap5rc_menu_full /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/lib/libgap5.so /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/staden
cp tg_index.bin /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
install tg_index /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
install gap5_cmd /build/buildd/staden-2.0.0+b10/debian/tmp/usr/bin
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/gap5'
cd scripts && make -f /build/buildd/staden-2.0.0+b10/./scripts/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./scripts SUBDIR=scripts install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/scripts'
/build/buildd/staden-2.0.0+b10/./scripts/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./scripts/../global.mk:233: warning: ignoring old recipe for target 'clean'
cp /build/buildd/staden-2.0.0+b10/./scripts/assemble4 /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
cp /build/buildd/staden-2.0.0+b10/./scripts/fasta-split /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
cp /build/buildd/staden-2.0.0+b10/./scripts/fasta2exp /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
cp /build/buildd/staden-2.0.0+b10/./scripts/splitseq_da /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
cp /build/buildd/staden-2.0.0+b10/./scripts/staden_help /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/scripts
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/scripts'
cd data && make -f /build/buildd/staden-2.0.0+b10/./data/Makefile  -w BUILD=/build/buildd/staden-2.0.0+b10 SRC=/build/buildd/staden-2.0.0+b10/./data SUBDIR=data install
make[4]: Entering directory '/build/buildd/staden-2.0.0+b10/data'
/build/buildd/staden-2.0.0+b10/./data/Makefile:9: warning: overriding recipe for target 'clean'
/build/buildd/staden-2.0.0+b10/./data/../global.mk:233: warning: ignoring old recipe for target 'clean'
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/alus
cp /build/buildd/staden-2.0.0+b10/./data/alus/* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/alus
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/blast_data
cp /build/buildd/staden-2.0.0+b10/./data/blast_data/* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/blast_data
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/gcodes
cp /build/buildd/staden-2.0.0+b10/./data/gcodes/* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/gcodes
mkdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/vectors
cp /build/buildd/staden-2.0.0+b10/./data/vectors/* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc/vectors
cp /build/buildd/staden-2.0.0+b10/./data/RENZYM.* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./data/renzyme_bairoch /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./data/m13mp18_primers /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./data/vector_primer /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
cp /build/buildd/staden-2.0.0+b10/./data/pam250 /build/buildd/staden-2.0.0+b10/debian/tmp/usr/share/staden/etc
make[4]: Leaving directory '/build/buildd/staden-2.0.0+b10/data'
make[3]: Leaving directory '/build/buildd/staden-2.0.0+b10'
make[2]: Leaving directory '/build/buildd/staden-2.0.0+b10'
# Remove file causing lintian errors that is targeting at windows
find debian -name help_windows.tcl -delete
# Remove some empty directories
find debian -type d -empty -name acdtcl -delete
find debian -type d -empty -name templates -delete
# Build system is not prepared for multi-arch
mv /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu/* /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib
rmdir /build/buildd/staden-2.0.0+b10/debian/tmp/usr/lib/x86_64-linux-gnu
make[1]: Leaving directory '/build/buildd/staden-2.0.0+b10'
   dh_install
   dh_installdocs
dh_installdocs: Could not parse doc-base for doc-base Document id; skipping
   dh_installchangelogs
   dh_installman
   dh_perl
   dh_link
   dh_compress
   debian/rules override_dh_fixperms
make[1]: Entering directory '/build/buildd/staden-2.0.0+b10'
dh_fixperms
# scripts should be executable
chmod a+x debian/*/usr/share/staden/tcl/gap5/contig_graph.tcl
chmod a+x debian/*/usr/share/staden/tcl/gap5/gap5_cmd.tcl
chmod a+x debian/*/usr/share/staden/tcl/prefinish/add_stops.tcl
chmod a+x debian/*/usr/share/staden/tcl/prefinish/finish_sanger.tcl
chmod a+x debian/*/usr/share/staden/tcl/tk_utils/help_ext.tcl
chmod a+x debian/*/usr/share/staden/tcl/tk_utils/help_galeon.tcl
chmod a+x debian/*/usr/share/staden/tcl/tk_utils/help_int.tcl
chmod a+x debian/*/usr/share/staden/tcl/tk_utils/help_netscape.tcl
make[1]: Leaving directory '/build/buildd/staden-2.0.0+b10'
   dh_strip
dh_strip debug symbol extraction: not enabling -a because /CurrentlyBuilding exists
dh_strip debug symbol extraction: all non-arch-all packages for this build platform amd64: staden 
dh_strip debug symbol extraction: packages to act on: staden 
dh_strip debug symbol extraction: ignored packages: 
Using buildid for compat level >= 9
dpkg-gencontrol: warning: -is is deprecated; it is without effect
dpkg-gencontrol: warning: -ip is deprecated; it is without effect
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
/usr/bin/pkg_create_dbgsym: building ddeb package
dpkg-deb: building package `staden-dbgsym' in `../staden-dbgsym_2.0.0+b10-1.1_amd64.ddeb'.
   dh_makeshlibs
   dh_shlibdeps
   dh_installdeb
   dh_gencontrol
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
   dh_md5sums
   dh_builddeb
INFO: pkgstriptranslations version 121
pkgstriptranslations: processing staden (in debian/staden); do_strip: , oemstrip: 
debian/staden/usr/share/applications/staden_pregap4.desktop: does not have gettext domain, not stripping
debian/staden/usr/share/applications/staden_gap4.desktop: does not have gettext domain, not stripping
debian/staden/usr/share/applications/staden_trev.desktop: does not have gettext domain, not stripping
debian/staden/usr/share/applications/staden_gap5.desktop: does not have gettext domain, not stripping
pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>"
pkgstripfiles: processing control file: debian/staden/DEBIAN/control, package staden, directory debian/staden
Skipping arch: any to arch: all dependency to staden-common
pkgstripfiles: PNG optimization for package staden took 0 s
dpkg-deb: building package `staden' in `../staden_2.0.0+b10-1.1_amd64.deb'.
INFO: pkgstriptranslations version 121
pkgstriptranslations: processing staden-common (in debian/staden-common); do_strip: , oemstrip: 
pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>"
pkgstripfiles: processing control file: debian/staden-common/DEBIAN/control, package staden-common, directory debian/staden-common
pkgstripfiles: PNG optimization for package staden-common took 0 s
dpkg-deb: building package `staden-common' in `../staden-common_2.0.0+b10-1.1_all.deb'.
 dpkg-genchanges -b -mUbuntu/amd64 Build Daemon <buildd@aatxe.buildd> >../staden_2.0.0+b10-1.1_amd64.changes
dpkg-genchanges: binary-only upload (no source code included)
 dpkg-source --after-build staden-2.0.0+b10
dpkg-buildpackage: binary-only upload (no source included)
******************************************************************************
Build finished at 20150221-0221
Publishing debug debs.

chroot-autobuild/build/buildd/staden_2.0.0+b10-1.1_amd64.deb:
 new debian package, version 2.0.
 size 1373980 bytes: control archive= 3332 bytes.
      30 bytes,     1 lines      conffiles            
    2560 bytes,    48 lines      control              
    3767 bytes,    59 lines      md5sums              
 Package: staden
 Version: 2.0.0+b10-1.1
 Architecture: amd64
 Maintainer: Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
 Original-Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 4223
 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), liblzma5 (>= 5.1.1alpha+20120614), libpng12-0 (>= 1.2.13-4), libstaden-read1 (>= 1.13.2), libstdc++6, libtcl8.6 (>= 8.6.0), libtk8.6 (>= 8.6.0), libx11-6, zlib1g (>= 1:1.2.0.2), staden-common (= 2.0.0+b10-1.1), staden-io-lib-utils, tklib
 Suggests: staden-doc
 Section: science
 Priority: optional
 Homepage: https://staden.sf.net
 Description: DNA sequence assembly (Gap4/Gap5), editing and analysis tools
  Staden is a fully developed set of DNA sequence assembly (Gap4 and
  Gap5), editing and analysis tools (Spin).
  .
  Gap4 performs sequence assembly, contig ordering based on read pair
  data, contig joining based on sequence comparisons, assembly checking,
  repeat searching, experiment suggestion, read pair analysis and contig
  editing. It has graphical views of contigs, templates, readings and
  traces which all scroll in register. Contig editor searches and
  experiment suggestion routines use confidence values to calculate the
  confidence of the consensus sequence and hence identify only places
  requiring visual trace inspection or extra data. The result is
  extremely rapid finishing and a consensus of known accuracy.
  .
  Pregap4 provides a graphical user interface to set up the processing
  required to prepare trace data for assembly or analysis, and automates
  these processes.
  .
  Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and
  ZTR trace files.
  .
  Prefinish analyses partially completed sequence assemblies and suggests
  the most efficient set of experiments to help finish the project.
  .
  Tracediff and hetscan automatically locate mutations by comparing trace
  data against reference traces. They annotate the mutations found ready
  for viewing in gap4.
  .
  Spin analyses nucleotide sequences to find genes, restriction sites,
  motifs, etc. It can perform translations, find open reading frames,
  count codons, etc. Many results are presented graphically and a sliding
  sequence window is linked to the graphics cursor. Spin also compares
  pairs of sequences in many ways. It has very rapid dot matrix analysis,
  global and local alignment algorithms, plus a sliding sequence window
  linked to the graphical plots. It can compare nucleic acid against
  nucleic acid, protein against protein, and protein against nucleic
  acid.

chroot-autobuild/build/buildd/staden-common_2.0.0+b10-1.1_all.deb:
 new debian package, version 2.0.
 size 1768488 bytes: control archive= 17284 bytes.
    2411 bytes,    52 lines      control              
   39595 bytes,   529 lines      md5sums              
 Package: staden-common
 Source: staden
 Version: 2.0.0+b10-1.1
 Architecture: all
 Maintainer: Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
 Original-Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 5631
 Depends: tk8.6 | wish
 Recommends: ksh | zsh
 Section: science
 Priority: optional
 Homepage: https://staden.sf.net
 Description: Architecture independent files for Staden
  Staden is a fully developed set of DNA sequence assembly (Gap4 and
  Gap5), editing and analysis tools (Spin).
  .
  Gap4 performs sequence assembly, contig ordering based on read pair
  data, contig joining based on sequence comparisons, assembly checking,
  repeat searching, experiment suggestion, read pair analysis and contig
  editing. It has graphical views of contigs, templates, readings and
  traces which all scroll in register. Contig editor searches and
  experiment suggestion routines use confidence values to calculate the
  confidence of the consensus sequence and hence identify only places
  requiring visual trace inspection or extra data. The result is
  extremely rapid finishing and a consensus of known accuracy.
  .
  Pregap4 provides a graphical user interface to set up the processing
  required to prepare trace data for assembly or analysis, and automates
  these processes.
  .
  Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and
  ZTR trace files.
  .
  Prefinish analyses partially completed sequence assemblies and suggests
  the most efficient set of experiments to help finish the project.
  .
  Tracediff and hetscan automatically locate mutations by comparing trace
  data against reference traces. They annotate the mutations found ready
  for viewing in gap4.
  .
  Spin analyses nucleotide sequences to find genes, restriction sites,
  motifs, etc. It can perform translations, find open reading frames,
  count codons, etc. Many results are presented graphically and a sliding
  sequence window is linked to the graphics cursor. Spin also compares
  pairs of sequences in many ways. It has very rapid dot matrix analysis,
  global and local alignment algorithms, plus a sliding sequence window
  linked to the graphical plots. It can compare nucleic acid against
  nucleic acid, protein against protein, and protein against nucleic
  acid.
  .
  This package contains the architecture independent data files and
  scripts that come with the Staden package.

chroot-autobuild/build/buildd/staden_2.0.0+b10-1.1_amd64.deb:
drwxr-xr-x root/root         0 2015-02-21 02:20 ./
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/bin/
-rwxr-xr-x root/root       642 2014-04-22 15:07 ./usr/bin/staden
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/lib/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/lib/staden/
-rw-r--r-- root/root     35824 2015-02-21 02:20 ./usr/lib/staden/libhaplo.so
-rw-r--r-- root/root    157192 2015-02-21 02:20 ./usr/lib/staden/libseq_utils.so
-rw-r--r-- root/root    430512 2015-02-21 02:20 ./usr/lib/staden/libspin.so
-rw-r--r-- root/root     87808 2015-02-21 02:20 ./usr/lib/staden/libprefinish.so
-rw-r--r-- root/root     47680 2015-02-21 02:20 ./usr/lib/staden/libg.so
-rw-r--r-- root/root    199264 2015-02-21 02:20 ./usr/lib/staden/libmutlib.so
-rw-r--r-- root/root   1022528 2015-02-21 02:20 ./usr/lib/staden/libgap.so
-rw-r--r-- root/root     10224 2015-02-21 02:20 ./usr/lib/staden/libtext_utils.so
-rw-r--r-- root/root     44416 2015-02-21 02:20 ./usr/lib/staden/libmisc.so
-rw-r--r-- root/root   1013680 2015-02-21 02:20 ./usr/lib/staden/libgap5.so
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/lib/staden/bin/
-rwxr-xr-x root/root     14656 2015-02-21 02:20 ./usr/lib/staden/bin/polyA_clip
-rwxr-xr-x root/root     18976 2015-02-21 02:20 ./usr/lib/staden/bin/tracediff
-rwxr-xr-x root/root     18752 2015-02-21 02:20 ./usr/lib/staden/bin/make_weights
-rwxr-xr-x root/root      2101 2015-02-21 02:20 ./usr/lib/staden/bin/create_emboss_files
-rwxr-xr-x root/root     22888 2015-02-21 02:20 ./usr/lib/staden/bin/screen_seq
-rwxr-xr-x root/root     18760 2015-02-21 02:20 ./usr/lib/staden/bin/qclip
-rwxr-xr-x root/root     18984 2015-02-21 02:20 ./usr/lib/staden/bin/mutscan
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-rwxr-xr-x root/root      1855 2015-02-21 02:20 ./usr/lib/staden/bin/spin
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-rwxr-xr-x root/root     18696 2015-02-21 02:20 ./usr/lib/staden/bin/getABIfield
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-rwxr-xr-x root/root     10448 2015-02-21 02:20 ./usr/lib/staden/bin/getABISampleName
-rwxr-xr-x root/root     10448 2015-02-21 02:20 ./usr/lib/staden/bin/getABIdate
-rwxr-xr-x root/root     22824 2015-02-21 02:20 ./usr/lib/staden/bin/eba
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-rwxr-xr-x root/root      1865 2015-02-21 02:20 ./usr/lib/staden/bin/gap5_cmd
-rwxr-xr-x root/root     10536 2015-02-21 02:20 ./usr/lib/staden/bin/init_exp
-rwxr-xr-x root/root      1815 2015-02-21 02:20 ./usr/lib/staden/bin/tg_index
-rwxr-xr-x root/root     10464 2015-02-21 02:20 ./usr/lib/staden/bin/get_scf_field
-rwxr-xr-x root/root      1861 2015-02-21 02:20 ./usr/lib/staden/bin/gap5
-rwxr-xr-x root/root     47512 2015-02-21 02:20 ./usr/lib/staden/bin/vector_clip
-rwxr-xr-x root/root     89032 2015-02-21 02:20 ./usr/lib/staden/bin/copy_db
-rwxr-xr-x root/root     10448 2015-02-21 02:20 ./usr/lib/staden/bin/getABIcomment
-rwxr-xr-x root/root     14592 2015-02-21 02:20 ./usr/lib/staden/bin/alfsplit
-rw-r--r-- root/root     27712 2015-02-21 02:20 ./usr/lib/staden/libcopy_reads.so
-rw-r--r-- root/root    104688 2015-02-21 02:20 ./usr/lib/staden/libprimer3.so
-rw-r--r-- root/root    239128 2015-02-21 02:20 ./usr/lib/staden/libtk_utils.so
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/staden/
-rw-r--r-- root/root      4107 2013-06-12 16:45 ./usr/share/staden/icon4bl.svg
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/doc/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/doc/staden/
-rw-r--r-- root/root      9481 2014-05-21 13:15 ./usr/share/doc/staden/copyright
-rw-r--r-- root/root       761 2014-07-11 05:38 ./usr/share/doc/staden/changelog.Debian.gz
-rw-r--r-- root/root      1150 2014-05-13 11:55 ./usr/share/doc/staden/README.Debian
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/man/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/man/man1/
-rw-r--r-- root/root       961 2015-02-21 02:20 ./usr/share/man/man1/gap5.1.gz
-rw-r--r-- root/root       682 2015-02-21 02:20 ./usr/share/man/man1/pregap4.1.gz
-rw-r--r-- root/root       826 2015-02-21 02:20 ./usr/share/man/man1/trev.1.gz
-rw-r--r-- root/root       995 2015-02-21 02:20 ./usr/share/man/man1/spin.1.gz
-rw-r--r-- root/root      1007 2015-02-21 02:20 ./usr/share/man/man1/gap4.1.gz
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/applications/
-rw-r--r-- root/root       269 2014-01-20 17:51 ./usr/share/applications/staden_pregap4.desktop
-rw-r--r-- root/root       247 2014-01-20 17:51 ./usr/share/applications/staden_gap4.desktop
-rw-r--r-- root/root       241 2014-01-20 17:51 ./usr/share/applications/staden_trev.desktop
-rw-r--r-- root/root       242 2014-01-20 17:51 ./usr/share/applications/staden_gap5.desktop
drwxr-xr-x root/root         0 2015-02-21 02:20 ./etc/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./etc/bash_completion.d/
-rw-r--r-- root/root       833 2014-04-21 20:38 ./etc/bash_completion.d/staden
lrwxrwxrwx root/root         0 2015-02-21 02:20 ./usr/bin/gap4 -> ../lib/staden/bin/gap4
lrwxrwxrwx root/root         0 2015-02-21 02:20 ./usr/bin/trev -> ../lib/staden/bin/trev
lrwxrwxrwx root/root         0 2015-02-21 02:20 ./usr/bin/spin -> ../lib/staden/bin/spin
lrwxrwxrwx root/root         0 2015-02-21 02:20 ./usr/bin/pregap4 -> ../lib/staden/bin/pregap4
lrwxrwxrwx root/root         0 2015-02-21 02:20 ./usr/bin/gap5 -> ../lib/staden/bin/gap5

chroot-autobuild/build/buildd/staden-common_2.0.0+b10-1.1_all.deb:
drwxr-xr-x root/root         0 2015-02-21 02:20 ./
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/staden/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/staden/scripts/
-rwxr-xr-x root/root      1876 2015-02-21 02:20 ./usr/share/staden/scripts/staden_help
-rwxr-xr-x root/root      8474 2015-02-21 02:20 ./usr/share/staden/scripts/finish_cDNA_ends_only
-rwxr-xr-x root/root      1943 2015-02-21 02:20 ./usr/share/staden/scripts/assemble4
-rwxr-xr-x root/root      2473 2015-02-21 02:20 ./usr/share/staden/scripts/splitseq_da
-rwxr-xr-x root/root       234 2015-02-21 02:20 ./usr/share/staden/scripts/fasta-split
-rwxr-xr-x root/root       351 2015-02-21 02:20 ./usr/share/staden/scripts/fasta2exp
-rwxr-xr-x root/root     10938 2015-02-21 02:20 ./usr/share/staden/scripts/finish_cDNA
-rwxr-xr-x root/root      1982 2015-02-21 02:20 ./usr/share/staden/scripts/finish_sanger
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/staden/etc/
-rw-r--r-- root/root       281 2015-02-21 02:20 ./usr/share/staden/etc/follow.bitmap
-rw-r--r-- root/root     33672 2015-02-21 02:20 ./usr/share/staden/etc/gap5rc_menu_full
-rw-r--r-- root/root      2068 2015-02-21 02:20 ./usr/share/staden/etc/pam250
-rw-r--r-- root/root       193 2015-02-21 02:20 ./usr/share/staden/etc/2bars_h.bmp
-rw-r--r-- root/root       135 2015-02-21 02:20 ./usr/share/staden/etc/spin_embossrc
-rw-r--r-- root/root      2570 2015-02-21 02:20 ./usr/share/staden/etc/copy_readsrc
-rw-r--r-- root/root      1707 2015-02-21 02:20 ./usr/share/staden/etc/eia.wts
-rw-r--r-- root/root      8521 2015-02-21 02:20 ./usr/share/staden/etc/RENZYM.ALL
-rw-r--r-- root/root      4315 2015-02-21 02:20 ./usr/share/staden/etc/trevrc
-rw-r--r-- root/root      3368 2015-02-21 02:20 ./usr/share/staden/etc/vector_primer
-rw-r--r-- root/root       787 2015-02-21 02:20 ./usr/share/staden/etc/shlib.conf
-rw-r--r-- root/root      3791 2015-02-21 02:20 ./usr/share/staden/etc/perceptron.wts
-rw-r--r-- root/root     23942 2015-02-21 02:20 ./usr/share/staden/etc/gaprc_menu_mito
-rw-r--r-- root/root      8170 2015-02-21 02:20 ./usr/share/staden/etc/siprc
-rw-r--r-- root/root       632 2015-02-21 02:20 ./usr/share/staden/etc/prokprom_10.wts
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-rw-r--r-- root/root      1585 2015-02-21 02:20 ./usr/share/staden/etc/RENZYM.6
-rw-r--r-- root/root      2186 2015-02-21 02:20 ./usr/share/staden/etc/cap2rc
-rw-r--r-- root/root     23660 2015-02-21 02:20 ./usr/share/staden/etc/GTAGDB
-rw-r--r-- root/root        55 2015-02-21 02:20 ./usr/share/staden/etc/help_config
-rw-r--r-- root/root      1007 2015-02-21 02:20 ./usr/share/staden/etc/NOTEDB
-rw-r--r-- root/root      1406 2015-02-21 02:20 ./usr/share/staden/etc/nuc_matrix
-rw-r--r-- root/root       482 2015-02-21 02:20 ./usr/share/staden/etc/checked.gif
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-rw-r--r-- root/root     11020 2015-02-21 02:20 ./usr/share/staden/etc/tk_utilsrc
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-rw-r--r-- root/root      9303 2015-02-21 02:20 ./usr/share/staden/etc/spinrc
-rw-r--r-- root/root        70 2015-02-21 02:20 ./usr/share/staden/etc/m13mp18_primers
-rw-r--r-- root/root      8079 2015-02-21 02:20 ./usr/share/staden/etc/pregap4rc
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-rw-r--r-- root/root      4116 2015-02-21 02:20 ./usr/share/staden/etc/fak2rc
-rw-r--r-- root/root      1412 2015-02-21 02:20 ./usr/share/staden/etc/align_lib_nuc_matrix
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_21
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_11
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_2
-rw-r--r-- root/root       691 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_index
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_23
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_9
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_5
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_15
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_6
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_1
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_22
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_14
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_3
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_13
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_10
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_16
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_4
-rw-r--r-- root/root      1134 2015-02-21 02:20 ./usr/share/staden/etc/gcodes/code_12
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/staden/etc/alus/
-rw-r--r-- root/root       292 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMNGFB
-rw-r--r-- root/root       297 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMGAST2
-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-8
-rw-r--r-- root/root       298 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTHBNB-2
-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTBB5-6
-rw-r--r-- root/root       321 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMPOMC2
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMHBA4
-rw-r--r-- root/root       298 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-13
-rw-r--r-- root/root       288 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMANFA
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-18
-rw-r--r-- root/root      2967 2015-02-21 02:20 ./usr/share/staden/etc/alus/files
-rw-r--r-- root/root       261 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSAB6
-rw-r--r-- root/root       280 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-6
-rw-r--r-- root/root       283 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMPOMC6
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMUG2PD
-rw-r--r-- root/root       297 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-12
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMALBG
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-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMAPOAI1
-rw-r--r-- root/root       315 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTHBNB-3
-rw-r--r-- root/root       291 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMAPOE4-3
-rw-r--r-- root/root       299 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMLDLR
-rw-r--r-- root/root       290 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTBB5-7
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMAPOE4
-rw-r--r-- root/root       310 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-4
-rw-r--r-- root/root       308 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMFIXG-2
-rw-r--r-- root/root       281 2015-02-21 02:20 ./usr/share/staden/etc/alus/M12036
-rw-r--r-- root/root       292 2015-02-21 02:20 ./usr/share/staden/etc/alus/M13121
-rw-r--r-- root/root       282 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMAPOE4-2
-rw-r--r-- root/root       304 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMFIXG-3
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/M11591
-rw-r--r-- root/root       302 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMFOL5-2
-rw-r--r-- root/root       302 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTBB5-3
-rw-r--r-- root/root       289 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMMHDRB3
-rw-r--r-- root/root       270 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMFIXG-4
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMC1A21
-rw-r--r-- root/root       297 2015-02-21 02:20 ./usr/share/staden/etc/alus/M12929
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMAPOE4-4
-rw-r--r-- root/root       291 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTBB5-4
-rw-r--r-- root/root       301 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-2
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-9
-rw-r--r-- root/root       264 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMIFNB3
-rw-r--r-- root/root       293 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMPOMC1
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSAP3
-rw-r--r-- root/root       273 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSKPA1
-rw-r--r-- root/root       299 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSAOLD
-rw-r--r-- root/root       299 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-5
-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMHBA4-2
-rw-r--r-- root/root       297 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMPOMC
-rw-r--r-- root/root       290 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSA16
-rw-r--r-- root/root       310 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-15
-rw-r--r-- root/root       303 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMLDLR-2
-rw-r--r-- root/root       292 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMACHRA7
-rw-r--r-- root/root       246 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSAB19
-rw-r--r-- root/root       292 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTBBM40
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMAPOAII
-rw-r--r-- root/root        72 2015-02-21 02:20 ./usr/share/staden/etc/alus/consensi
-rw-r--r-- root/root       297 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTHBNB
-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-3
-rw-r--r-- root/root       284 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-3
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-rw-r--r-- root/root       293 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMMHDRB3-2
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-rw-r--r-- root/root       290 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMLDLIVS
-rw-r--r-- root/root       190 2015-02-21 02:20 ./usr/share/staden/etc/alus/README
-rw-r--r-- root/root       292 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-11
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-18
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-12
-rw-r--r-- root/root       299 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMHBBRT-2
-rw-r--r-- root/root       293 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-19
-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMHBBRT
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSAB2
-rw-r--r-- root/root       270 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMRSAB8
-rw-r--r-- root/root       295 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-17
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/ALUA
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-4
-rw-r--r-- root/root       292 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMTPA-5
-rw-r--r-- root/root       301 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMBLYM1
-rw-r--r-- root/root       264 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMGHV
-rw-r--r-- root/root       298 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-6
-rw-r--r-- root/root       296 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMADAG-9
-rw-r--r-- root/root       241 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMANFA-2
-rw-r--r-- root/root       294 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMIFNB3-5
-rw-r--r-- root/root       293 2015-02-21 02:20 ./usr/share/staden/etc/alus/HUMUG2PD-2
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-rw-r--r-- root/root      1901 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/scaffold.tcl
-rw-r--r-- root/root      6827 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/result_manager.tcl
-rw-r--r-- root/root     18961 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/consen.tcl
-rw-r--r-- root/root      4926 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/import_contigs.tcl
-rw-r--r-- root/root      8348 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/sendto.tcl
-rw-r--r-- root/root     19244 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/gap5_del_test.tcl
-rw-r--r-- root/root     18779 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/tclIndex
-rw-r--r-- root/root      6066 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/find_repeats.tcl
-rw-r--r-- root/root      4928 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/select_contig.tcl
-rw-r--r-- root/root      4210 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/complement.tcl
-rw-r--r-- root/root     10815 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/gap5_thrash.tcl
-rw-r--r-- root/root     13145 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/search.tcl
-rw-r--r-- root/root      5502 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/export_contigs.tcl
-rw-r--r-- root/root     64196 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/depth.tcl
-rw-r--r-- root/root      4444 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/gap_canvas_box.tcl
-rw-r--r-- root/root     17494 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/gap_restriction_enzymes.tcl
-rw-r--r-- root/root     11491 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/map_reads.tcl
-rw-r--r-- root/root      2878 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/contig_extend.tcl
-rw-r--r-- root/root     52944 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/acd2tag.tcl
-rw-r--r-- root/root      8041 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/ng_fb_cmds.tcl
-rw-r--r-- root/root      3073 2015-02-21 02:20 ./usr/share/staden/tcl/gap5/qual.tcl
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/doc/
drwxr-xr-x root/root         0 2015-02-21 02:20 ./usr/share/doc/staden-common/
-rw-r--r-- root/root      9481 2014-05-21 13:15 ./usr/share/doc/staden-common/copyright
-rw-r--r-- root/root       761 2014-07-11 05:38 ./usr/share/doc/staden-common/changelog.Debian.gz

staden_2.0.0+b10-1.1_amd64.changes:
Format: 1.8
Date: Fri, 11 Jul 2014 09:36:09 +0400
Source: staden
Binary: staden staden-common
Architecture: amd64 all
Version: 2.0.0+b10-1.1
Distribution: vivid
Urgency: low
Maintainer: Ubuntu/amd64 Build Daemon <buildd@aatxe.buildd>
Changed-By: Sergei Golovan <sgolovan@debian.org>
Description:
 staden     - DNA sequence assembly (Gap4/Gap5), editing and analysis tools
 staden-common - Architecture independent files for Staden
Closes: 753935
Changes:
 staden (2.0.0+b10-1.1) unstable; urgency=low
 .
   * Non-maintainer upload.
   * Point configure to the new location of Itcl and Itk packages
     (closes: #753935).
Checksums-Sha1:
 7576593bf70cb3420500dbc344859c800c488d27 1373980 staden_2.0.0+b10-1.1_amd64.deb
 a1a20c0d99048a45de48c0f4d954bb88e13adeb8 1768488 staden-common_2.0.0+b10-1.1_all.deb
Checksums-Sha256:
 27929295e0bf954c29d4d478aca285ac753138d9e7a7e4e7e8908c1e218fd0b7 1373980 staden_2.0.0+b10-1.1_amd64.deb
 a018bf969fc9642edf24f1576c5e231ed07443a8c41eff6a39706d4c23cc304d 1768488 staden-common_2.0.0+b10-1.1_all.deb
Files:
 57db5c5c9cc359f949123d9f3a23e12a 1373980 science optional staden_2.0.0+b10-1.1_amd64.deb
 277cfe83fa0807ea67ec4cd3d030f44c 1768488 science optional staden-common_2.0.0+b10-1.1_all.deb

******************************************************************************
Built successfully
******************************************************************************
Finished at 20150221-0221
Build needed 00:02:58, 106048k disk space
Function `xcalloc' implicitly converted to pointer at stops.c:235
Function `xcalloc' implicitly converted to pointer at hetins.c:208



Our automated build log filter detected the problem(s) above that will
likely cause your package to segfault on architectures where the size of
a pointer is greater than the size of an integer, such as ia64 and amd64.

This is often due to a missing function prototype definition.

Since use of implicitly converted pointers is always fatal to the application
on ia64, they are errors.  Please correct them for your next upload.

More information can be found at:
http://wiki.debian.org/ImplicitPointerConversions

    
RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-6927507']
Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-6927507/chroot-autobuild...
RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-6927507']
Unmounting chroot for build PACKAGEBUILD-6927507...
RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-6927507']
Removing build PACKAGEBUILD-6927507