RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux bos01-ppc64el-025 4.4.0-101-generic #124-Ubuntu SMP Fri Nov 10 18:29:11 UTC 2017 ppc64le Buildd toolchain package versions: launchpad-buildd_157 python-lpbuildd_157 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.3 dpkg-dev_1.18.4ubuntu1.3 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 18 Dec 23:05:58 ntpdate[1787]: adjust time server 10.211.37.1 offset 0.036076 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 /home/buildd/filecache-default/64ab4a3b1843816d631a3747c16f42fa2d8de59d Creating target for build PACKAGEBUILD-13871873 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 Starting target for build PACKAGEBUILD-13871873 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 'deb http://ftpmaster.internal/ubuntu bionic main universe' 'deb http://ftpmaster.internal/ubuntu bionic-security main universe' 'deb http://ftpmaster.internal/ubuntu bionic-updates main universe' 'deb http://ftpmaster.internal/ubuntu bionic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-13871873 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 Updating target for build PACKAGEBUILD-13871873 Get:1 http://ftpmaster.internal/ubuntu bionic InRelease [235 kB] Get:2 http://ftpmaster.internal/ubuntu bionic-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu bionic-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu bionic-proposed InRelease [85.4 kB] Get:5 http://ftpmaster.internal/ubuntu bionic/main ppc64el Packages [972 kB] Get:6 http://ftpmaster.internal/ubuntu bionic/main Translation-en [517 kB] Get:7 http://ftpmaster.internal/ubuntu bionic/universe ppc64el Packages [8079 kB] Get:8 http://ftpmaster.internal/ubuntu bionic/universe Translation-en [4910 kB] Get:9 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el Packages [46.4 kB] Get:10 http://ftpmaster.internal/ubuntu bionic-proposed/main Translation-en [25.7 kB] Get:11 http://ftpmaster.internal/ubuntu bionic-proposed/universe ppc64el Packages [167 kB] Get:12 http://ftpmaster.internal/ubuntu bionic-proposed/universe Translation-en [94.5 kB] Fetched 15.3 MB in 9s (1694 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libasn1-8-heimdal libcurl3-gnutls libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libidn2-0 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libnghttp2-14 libpsl5 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libunistring0 libwind0-heimdal Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: liblsan0 libnghttp2-14 libtsan0 The following packages will be upgraded: adduser apt apt-transport-https base-files base-passwd binutils binutils-common binutils-powerpc64le-linux-gnu bsdutils build-essential coreutils cpp-7 debconf debianutils dpkg dpkg-dev e2fslibs e2fsprogs fdisk findutils g++-7 gcc-7 gcc-7-base gnupg gnupg-agent gpgv libapparmor1 libapt-pkg5.0 libasan4 libasn1-8-heimdal libassuan0 libatomic1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcomerr2 libcurl3-gnutls libdpkg-perl libfdisk1 libffi6 libgcc-7-dev libgcc1 libgcrypt20 libgmp10 libgomp1 libgpg-error0 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhogweed4 libhx509-5-heimdal libidn11 libidn2-0 libip4tc0 libitm1 libkeyutils1 libkrb5-26-heimdal liblockfile-bin liblockfile1 libmount1 libnettle6 libnpth0 libp11-kit0 libpcre3 libperl5.26 libpng16-16 libpsl5 libroken18-heimdal libseccomp2 libselinux1 libsemanage-common libsemanage1 libsmartcols1 libsqlite3-0 libss2 libssl1.0.0 libstdc++-7-dev libstdc++6 libsystemd0 libtasn1-6 libubsan0 libudev1 libuuid1 libwind0-heimdal linux-libc-dev lsb-base mount multiarch-support openssl optipng perl perl-base perl-modules-5.26 pinentry-curses sensible-utils systemd systemd-sysv sysvinit-utils tzdata util-linux 107 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 59.9 MB of archives. After this operation, 9474 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu bionic/main ppc64el base-files ppc64el 10ubuntu1 [55.9 kB] Get:2 http://ftpmaster.internal/ubuntu bionic/main ppc64el bsdutils ppc64el 1:2.30.2-0.1ubuntu1 [61.8 kB] Get:3 http://ftpmaster.internal/ubuntu bionic/main ppc64el coreutils ppc64el 8.26-3ubuntu4 [1251 kB] Get:4 http://ftpmaster.internal/ubuntu bionic/main ppc64el debianutils ppc64el 4.8.3 [86.0 kB] Get:5 http://ftpmaster.internal/ubuntu bionic/main ppc64el dpkg ppc64el 1.19.0.4ubuntu1 [1149 kB] Get:6 http://ftpmaster.internal/ubuntu bionic/main ppc64el libc6-dev ppc64el 2.26-0ubuntu2 [2458 kB] Get:7 http://ftpmaster.internal/ubuntu bionic/main ppc64el libc-dev-bin ppc64el 2.26-0ubuntu2 [65.4 kB] Get:8 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el linux-libc-dev ppc64el 4.14.0-11.13 [953 kB] Get:9 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgomp1 ppc64el 7.2.0-18ubuntu2 [69.2 kB] Get:10 http://ftpmaster.internal/ubuntu bionic/main ppc64el libitm1 ppc64el 7.2.0-18ubuntu2 [29.7 kB] Get:11 http://ftpmaster.internal/ubuntu bionic/main ppc64el gcc-7-base ppc64el 7.2.0-18ubuntu2 [19.0 kB] Get:12 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgcc1 ppc64el 1:7.2.0-18ubuntu2 [29.8 kB] Get:13 http://ftpmaster.internal/ubuntu bionic/main ppc64el libatomic1 ppc64el 7.2.0-18ubuntu2 [8532 B] Get:14 http://ftpmaster.internal/ubuntu bionic/main ppc64el libasan4 ppc64el 7.2.0-18ubuntu2 [367 kB] Get:15 http://ftpmaster.internal/ubuntu bionic/main ppc64el liblsan0 ppc64el 7.2.0-18ubuntu2 [134 kB] Get:16 http://ftpmaster.internal/ubuntu bionic/main ppc64el libtsan0 ppc64el 7.2.0-18ubuntu2 [287 kB] Get:17 http://ftpmaster.internal/ubuntu bionic/main ppc64el libubsan0 ppc64el 7.2.0-18ubuntu2 [136 kB] Get:18 http://ftpmaster.internal/ubuntu bionic/main ppc64el cpp-7 ppc64el 7.2.0-18ubuntu2 [6260 kB] Get:19 http://ftpmaster.internal/ubuntu bionic/main ppc64el libcc1-0 ppc64el 7.2.0-18ubuntu2 [39.3 kB] Get:20 http://ftpmaster.internal/ubuntu bionic/main ppc64el g++-7 ppc64el 7.2.0-18ubuntu2 [7106 kB] Get:21 http://ftpmaster.internal/ubuntu bionic/main ppc64el gcc-7 ppc64el 7.2.0-18ubuntu2 [6903 kB] Get:22 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgcc-7-dev ppc64el 7.2.0-18ubuntu2 [986 kB] Get:23 http://ftpmaster.internal/ubuntu bionic/main ppc64el libstdc++-7-dev ppc64el 7.2.0-18ubuntu2 [1524 kB] Get:24 http://ftpmaster.internal/ubuntu bionic/main ppc64el libstdc++6 ppc64el 7.2.0-18ubuntu2 [440 kB] Get:25 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libgmp10 ppc64el 2:6.1.2+dfsg-1.1 [218 kB] Get:26 http://ftpmaster.internal/ubuntu bionic/main ppc64el libbinutils ppc64el 2.29.1-12ubuntu1 [457 kB] Get:27 http://ftpmaster.internal/ubuntu bionic/main ppc64el binutils ppc64el 2.29.1-12ubuntu1 [3404 B] Get:28 http://ftpmaster.internal/ubuntu bionic/main ppc64el binutils-common ppc64el 2.29.1-12ubuntu1 [190 kB] Get:29 http://ftpmaster.internal/ubuntu bionic/main ppc64el binutils-powerpc64le-linux-gnu ppc64el 2.29.1-12ubuntu1 [1969 kB] Get:30 http://ftpmaster.internal/ubuntu bionic/main ppc64el libc6 ppc64el 2.26-0ubuntu2 [2619 kB] Get:31 http://ftpmaster.internal/ubuntu bionic/main ppc64el e2fslibs ppc64el 1.43.7-1 [173 kB] Get:32 http://ftpmaster.internal/ubuntu bionic/main ppc64el e2fsprogs ppc64el 1.43.7-1 [510 kB] Get:33 http://ftpmaster.internal/ubuntu bionic/main ppc64el findutils ppc64el 4.6.0+git+20170828-2 [314 kB] Get:34 http://ftpmaster.internal/ubuntu bionic/main ppc64el perl-modules-5.26 all 5.26.1-3 [2761 kB] Get:35 http://ftpmaster.internal/ubuntu bionic/main ppc64el libperl5.26 ppc64el 5.26.1-3 [3399 kB] Get:36 http://ftpmaster.internal/ubuntu bionic/main ppc64el perl ppc64el 5.26.1-3 [201 kB] Get:37 http://ftpmaster.internal/ubuntu bionic/main ppc64el perl-base ppc64el 5.26.1-3 [1304 kB] Get:38 http://ftpmaster.internal/ubuntu bionic/main ppc64el libuuid1 ppc64el 2.30.2-0.1ubuntu1 [15.5 kB] Get:39 http://ftpmaster.internal/ubuntu bionic/main ppc64el libblkid1 ppc64el 2.30.2-0.1ubuntu1 [128 kB] Get:40 http://ftpmaster.internal/ubuntu bionic/main ppc64el libsmartcols1 ppc64el 2.30.2-0.1ubuntu1 [84.7 kB] Get:41 http://ftpmaster.internal/ubuntu bionic/main ppc64el libfdisk1 ppc64el 2.30.2-0.1ubuntu1 [160 kB] Get:42 http://ftpmaster.internal/ubuntu bionic/main ppc64el libpcre3 ppc64el 2:8.39-8 [224 kB] Get:43 http://ftpmaster.internal/ubuntu bionic/main ppc64el libselinux1 ppc64el 2.7-2 [78.6 kB] Get:44 http://ftpmaster.internal/ubuntu bionic/main ppc64el libmount1 ppc64el 2.30.2-0.1ubuntu1 [139 kB] Get:45 http://ftpmaster.internal/ubuntu bionic/main ppc64el fdisk ppc64el 2.30.2-0.1ubuntu1 [108 kB] Get:46 http://ftpmaster.internal/ubuntu bionic/main ppc64el util-linux ppc64el 2.30.2-0.1ubuntu1 [881 kB] Get:47 http://ftpmaster.internal/ubuntu bionic/main ppc64el base-passwd ppc64el 3.5.44 [50.1 kB] Get:48 http://ftpmaster.internal/ubuntu bionic/main ppc64el libc-bin ppc64el 2.26-0ubuntu2 [573 kB] Get:49 http://ftpmaster.internal/ubuntu bionic/main ppc64el sysvinit-utils ppc64el 2.88dsf-59.10ubuntu1 [20.6 kB] Get:50 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libudev1 ppc64el 235-3ubuntu3 [60.9 kB] Get:51 http://ftpmaster.internal/ubuntu bionic/main ppc64el libapt-pkg5.0 ppc64el 1.6~alpha5 [878 kB] Get:52 http://ftpmaster.internal/ubuntu bionic/main ppc64el debconf all 1.5.65 [124 kB] Get:53 http://ftpmaster.internal/ubuntu bionic/main ppc64el adduser all 3.116ubuntu1 [163 kB] Get:54 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgpg-error0 ppc64el 1.27-5 [42.1 kB] Get:55 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgcrypt20 ppc64el 1.8.1-4 [448 kB] Get:56 http://ftpmaster.internal/ubuntu bionic/main ppc64el gpgv ppc64el 2.1.15-1ubuntu8 [218 kB] Get:57 http://ftpmaster.internal/ubuntu bionic/main ppc64el libseccomp2 ppc64el 2.3.1-2.1ubuntu3 [47.2 kB] Get:58 http://ftpmaster.internal/ubuntu bionic/main ppc64el apt ppc64el 1.6~alpha5 [1191 kB] Get:59 http://ftpmaster.internal/ubuntu bionic/main ppc64el libapparmor1 ppc64el 2.11.0-2ubuntu18 [29.9 kB] Get:60 http://ftpmaster.internal/ubuntu bionic/main ppc64el libcap2 ppc64el 1:2.25-1.2 [13.5 kB] Get:61 http://ftpmaster.internal/ubuntu bionic/main ppc64el libidn11 ppc64el 1.33-2.1 [46.4 kB] Get:62 http://ftpmaster.internal/ubuntu bionic/main ppc64el libip4tc0 ppc64el 1.6.1-2ubuntu2 [23.6 kB] Get:63 http://ftpmaster.internal/ubuntu bionic/main ppc64el mount ppc64el 2.30.2-0.1ubuntu1 [111 kB] Get:64 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el systemd ppc64el 235-3ubuntu3 [2961 kB] Get:65 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libsystemd0 ppc64el 235-3ubuntu3 [213 kB] Get:66 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el systemd-sysv ppc64el 235-3ubuntu3 [13.1 kB] Get:67 http://ftpmaster.internal/ubuntu bionic/main ppc64el libcap-ng0 ppc64el 0.7.7-3.1 [11.6 kB] Get:68 http://ftpmaster.internal/ubuntu bionic/main ppc64el libcomerr2 ppc64el 1.43.7-1 [11.6 kB] Get:69 http://ftpmaster.internal/ubuntu bionic/main ppc64el libsemanage-common all 2.7-2 [6916 B] Get:70 http://ftpmaster.internal/ubuntu bionic/main ppc64el libsemanage1 ppc64el 2.7-2 [85.4 kB] Get:71 http://ftpmaster.internal/ubuntu bionic/main ppc64el libss2 ppc64el 1.43.7-1 [11.4 kB] Get:72 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libffi6 ppc64el 3.2.1-7 [21.7 kB] Get:73 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libnettle6 ppc64el 3.4-1 [138 kB] Get:74 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libhogweed4 ppc64el 3.4-1 [136 kB] Get:75 http://ftpmaster.internal/ubuntu bionic/main ppc64el libp11-kit0 ppc64el 0.23.9-2 [167 kB] Get:76 http://ftpmaster.internal/ubuntu bionic/main ppc64el libtasn1-6 ppc64el 4.12-3 [39.8 kB] Get:77 http://ftpmaster.internal/ubuntu bionic/main ppc64el lsb-base all 9.20170808ubuntu1 [12.5 kB] Get:78 http://ftpmaster.internal/ubuntu bionic/main ppc64el sensible-utils all 0.0.11 [14.8 kB] Get:79 http://ftpmaster.internal/ubuntu bionic/main ppc64el libassuan0 ppc64el 2.5.1-1 [33.9 kB] Get:80 http://ftpmaster.internal/ubuntu bionic/main ppc64el pinentry-curses ppc64el 1.0.0-3 [37.5 kB] Get:81 http://ftpmaster.internal/ubuntu bionic/main ppc64el libnpth0 ppc64el 1.5-3 [7780 B] Get:82 http://ftpmaster.internal/ubuntu bionic/main ppc64el gnupg ppc64el 2.1.15-1ubuntu8 [847 kB] Get:83 http://ftpmaster.internal/ubuntu bionic/main ppc64el gnupg-agent ppc64el 2.1.15-1ubuntu8 [291 kB] Get:84 http://ftpmaster.internal/ubuntu bionic/main ppc64el libsqlite3-0 ppc64el 3.21.0-1 [464 kB] Get:85 http://ftpmaster.internal/ubuntu bionic/main ppc64el libroken18-heimdal ppc64el 7.5.0+dfsg-1 [42.2 kB] Get:86 http://ftpmaster.internal/ubuntu bionic/main ppc64el libasn1-8-heimdal ppc64el 7.5.0+dfsg-1 [140 kB] Get:87 http://ftpmaster.internal/ubuntu bionic/main ppc64el libheimbase1-heimdal ppc64el 7.5.0+dfsg-1 [30.5 kB] Get:88 http://ftpmaster.internal/ubuntu bionic/main ppc64el libhcrypto4-heimdal ppc64el 7.5.0+dfsg-1 [100 kB] Get:89 http://ftpmaster.internal/ubuntu bionic/main ppc64el libwind0-heimdal ppc64el 7.5.0+dfsg-1 [48.0 kB] Get:90 http://ftpmaster.internal/ubuntu bionic/main ppc64el libhx509-5-heimdal ppc64el 7.5.0+dfsg-1 [108 kB] Get:91 http://ftpmaster.internal/ubuntu bionic/main ppc64el libkrb5-26-heimdal ppc64el 7.5.0+dfsg-1 [216 kB] Get:92 http://ftpmaster.internal/ubuntu bionic/main ppc64el libheimntlm0-heimdal ppc64el 7.5.0+dfsg-1 [16.4 kB] Get:93 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgssapi3-heimdal ppc64el 7.5.0+dfsg-1 [92.6 kB] Get:94 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libssl1.0.0 ppc64el 1.0.2g-1ubuntu15 [880 kB] Get:95 http://ftpmaster.internal/ubuntu bionic/main ppc64el multiarch-support ppc64el 2.26-0ubuntu2 [6832 B] Get:96 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el openssl ppc64el 1.0.2g-1ubuntu15 [520 kB] Get:97 http://ftpmaster.internal/ubuntu bionic/main ppc64el tzdata all 2017c-1 [188 kB] Get:98 http://ftpmaster.internal/ubuntu bionic/main ppc64el libidn2-0 ppc64el 2.0.4-1 [95.7 kB] Get:99 http://ftpmaster.internal/ubuntu bionic/main ppc64el libkeyutils1 ppc64el 1.5.9-9.2ubuntu1 [9736 B] Get:100 http://ftpmaster.internal/ubuntu bionic/main ppc64el libpng16-16 ppc64el 1.6.34-1 [200 kB] Get:101 http://ftpmaster.internal/ubuntu bionic/universe ppc64el apt-transport-https all 1.6~alpha5 [1692 B] Get:102 http://ftpmaster.internal/ubuntu bionic/main ppc64el dpkg-dev all 1.19.0.4ubuntu1 [607 kB] Get:103 http://ftpmaster.internal/ubuntu bionic/main ppc64el libdpkg-perl all 1.19.0.4ubuntu1 [211 kB] Get:104 http://ftpmaster.internal/ubuntu bionic/main ppc64el build-essential ppc64el 12.4ubuntu1 [4754 B] Get:105 http://ftpmaster.internal/ubuntu bionic/main ppc64el libnghttp2-14 ppc64el 1.28.0-1 [84.7 kB] Get:106 http://ftpmaster.internal/ubuntu bionic/main ppc64el libpsl5 ppc64el 0.19.1-4 [43.0 kB] Get:107 http://ftpmaster.internal/ubuntu bionic/main ppc64el libcurl3-gnutls ppc64el 7.57.0-1ubuntu1 [215 kB] Get:108 http://ftpmaster.internal/ubuntu bionic/main ppc64el liblockfile-bin ppc64el 1.14-1.1 [12.0 kB] Get:109 http://ftpmaster.internal/ubuntu bionic/main ppc64el liblockfile1 ppc64el 1.14-1.1 [6988 B] Get:110 http://ftpmaster.internal/ubuntu bionic/main ppc64el optipng ppc64el 0.7.6-1.1 [86.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.9 MB in 7s (7663 kB/s) (Reading database ... 12537 files and directories currently installed.) Preparing to unpack .../base-files_10ubuntu1_ppc64el.deb ... Unpacking base-files (10ubuntu1) over (9.6ubuntu101) ... Setting up base-files (10ubuntu1) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 12537 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.30.2-0.1ubuntu1_ppc64el.deb ... Unpacking bsdutils (1:2.30.2-0.1ubuntu1) over (1:2.30.1-0ubuntu4) ... Setting up bsdutils (1:2.30.2-0.1ubuntu1) ... (Reading database ... 12537 files and directories currently installed.) Preparing to unpack .../coreutils_8.26-3ubuntu4_ppc64el.deb ... Unpacking coreutils (8.26-3ubuntu4) over (8.26-3ubuntu3) ... Setting up coreutils (8.26-3ubuntu4) ... (Reading database ... 12537 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.3_ppc64el.deb ... Unpacking debianutils (4.8.3) over (4.8.2) ... Setting up debianutils (4.8.3) ... (Reading database ... 12537 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.0.4ubuntu1_ppc64el.deb ... Unpacking dpkg (1.19.0.4ubuntu1) over (1.18.24ubuntu1) ... Setting up dpkg (1.19.0.4ubuntu1) ... Installing new version of config file /etc/alternatives/README ... Installing new version of config file /etc/cron.daily/dpkg ... Installing new version of config file /etc/logrotate.d/dpkg ... (Reading database ... 12539 files and directories currently installed.) Preparing to unpack .../0-libc6-dev_2.26-0ubuntu2_ppc64el.deb ... Unpacking libc6-dev:ppc64el (2.26-0ubuntu2) over (2.26-0ubuntu1) ... Preparing to unpack .../1-libc-dev-bin_2.26-0ubuntu2_ppc64el.deb ... Unpacking libc-dev-bin (2.26-0ubuntu2) over (2.26-0ubuntu1) ... Preparing to unpack .../2-linux-libc-dev_4.14.0-11.13_ppc64el.deb ... 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Setting up apt-transport-https (1.6~alpha5) ... Setting up libidn2-0:ppc64el (2.0.4-1) ... Setting up libssl1.0.0:ppc64el (1.0.2g-1ubuntu15) ... Setting up libnghttp2-14:ppc64el (1.28.0-1) ... Setting up libasan4:ppc64el (7.2.0-18ubuntu2) ... Setting up libpng16-16:ppc64el (1.6.34-1) ... Setting up libpsl5:ppc64el (0.19.1-4) ... Setting up multiarch-support (2.26-0ubuntu2) ... Setting up tzdata (2017c-1) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Dec 18 23:06:36 UTC 2017. Universal Time is now: Mon Dec 18 23:06:36 UTC 2017. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (235-3ubuntu3) ... Setting up libubsan0:ppc64el (7.2.0-18ubuntu2) ... Setting up libtsan0:ppc64el (7.2.0-18ubuntu2) ... Setting up liblockfile1:ppc64el (1.14-1.1) ... Setting up linux-libc-dev:ppc64el (4.14.0-11.13) ... Setting up libroken18-heimdal:ppc64el (7.5.0+dfsg-1) ... Setting up perl-modules-5.26 (5.26.1-3) ... Setting up optipng (0.7.6-1.1) ... 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RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-13871873 ppc64el bionic-proposed -c chroot:build-PACKAGEBUILD-13871873 --arch=ppc64el --dist=bionic-proposed --nolog bowtie_1.2.2+dfsg-1.dsc Initiating build PACKAGEBUILD-13871873 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-101-generic #124-Ubuntu SMP Fri Nov 10 18:29:11 UTC 2017 ppc64le sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos01-ppc64el-025.buildd +==============================================================================+ | bowtie 1.2.2+dfsg-1 (ppc64el) 18 Dec 2017 23:06 | +==============================================================================+ Package: bowtie Version: 1.2.2+dfsg-1 Source Version: 1.2.2+dfsg-1 Distribution: bionic-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el I: NOTICE: Log filtering will replace 'build/bowtie-zifkAq/bowtie-1.2.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/bowtie-zifkAq' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-13871873/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- bowtie_1.2.2+dfsg-1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-s7f4p2/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-s7f4p2/apt_archive ./ InRelease Get:2 copy:/<>/resolver-s7f4p2/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-s7f4p2/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-s7f4p2/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-s7f4p2/apt_archive ./ Packages [529 B] Fetched 2862 B in 0s (135 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libasn1-8-heimdal libcurl3-gnutls libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libidn2-0 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libnghttp2-14 libpsl5 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libunistring0 libwind0-heimdal Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-s7f4p2/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 12560 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_ppc64el.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 10), help2man, libtbb-dev, python, seqan-dev (>= 1.4), zlib1g-dev Filtered Build-Depends: debhelper (>= 10), help2man, libtbb-dev, python, seqan-dev (>= 1.4), zlib1g-dev dpkg-deb: building package 'sbuild-build-depends-bowtie-dummy' in '/<>/resolver-1keoXb/apt_archive/sbuild-build-depends-bowtie-dummy.deb'. Ign:1 copy:/<>/resolver-1keoXb/apt_archive ./ InRelease Get:2 copy:/<>/resolver-1keoXb/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-1keoXb/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-1keoXb/apt_archive ./ Sources [246 B] Get:5 copy:/<>/resolver-1keoXb/apt_archive ./ Packages [563 B] Fetched 2928 B in 0s (130 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install bowtie build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libasn1-8-heimdal libcurl3-gnutls libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libidn2-0 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libnghttp2-14 libpsl5 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libwind0-heimdal Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3 libexpat1 libfile-stripnondeterminism-perl libfreetype6 libglib2.0-0 libgraphite2-3 libharfbuzz0b libicu-le-hb0 libicu60 liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libtbb-dev libtbb2 libtimedate-perl libtool libxml2 m4 man-db mime-support po-debconf python python-minimal python2.7 python2.7-minimal seqan-dev zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make dwz gettext-doc libasprintf-dev libgettextpo-dev groff tbb-examples libtbb-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc less www-browser apparmor libmail-box-perl python-doc python-tk python2.7-doc binfmt-support Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following packages will be REMOVED: pkg-create-dbgsym* The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3 libexpat1 libfile-stripnondeterminism-perl libfreetype6 libglib2.0-0 libgraphite2-3 libharfbuzz0b libicu-le-hb0 libicu60 liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2 libtbb-dev libtbb2 libtimedate-perl libtool libxml2 m4 man-db mime-support po-debconf python python-minimal python2.7 python2.7-minimal sbuild-build-depends-bowtie-dummy seqan-dev zlib1g-dev 0 upgraded, 49 newly installed, 1 to remove and 0 not upgraded. Need to get 24.0 MB of archives. After this operation, 107 MB of additional disk space will be used. 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2.7.14-4 [28.0 kB] Get:11 http://ftpmaster.internal/ubuntu bionic/main ppc64el mime-support all 3.60ubuntu1 [30.1 kB] Get:12 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libexpat1 ppc64el 2.2.5-2 [89.5 kB] Get:13 http://ftpmaster.internal/ubuntu bionic/main ppc64el libpython2.7-stdlib ppc64el 2.7.14-4 [2008 kB] Get:14 http://ftpmaster.internal/ubuntu bionic/main ppc64el python2.7 ppc64el 2.7.14-4 [233 kB] Get:15 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libpython-stdlib ppc64el 2.7.14-4 [7544 B] Get:16 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el python ppc64el 2.7.14-4 [140 kB] Get:17 http://ftpmaster.internal/ubuntu bionic/main ppc64el libmagic-mgc ppc64el 1:5.32-1 [184 kB] Get:18 http://ftpmaster.internal/ubuntu bionic/main ppc64el libmagic1 ppc64el 1:5.32-1 [76.6 kB] Get:19 http://ftpmaster.internal/ubuntu bionic/main ppc64el file ppc64el 1:5.32-1 [22.7 kB] Get:20 http://ftpmaster.internal/ubuntu bionic/main ppc64el libglib2.0-0 ppc64el 2.54.1-1ubuntu1 [1160 kB] Get:21 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libfreetype6 ppc64el 2.8.1-0.1ubuntu2 [386 kB] Get:22 http://ftpmaster.internal/ubuntu bionic/main ppc64el libgraphite2-3 ppc64el 1.3.10-8 [67.0 kB] Get:23 http://ftpmaster.internal/ubuntu bionic/main ppc64el libharfbuzz0b ppc64el 1.7.2-1 [237 kB] Get:24 http://ftpmaster.internal/ubuntu bionic/main ppc64el libicu-le-hb0 ppc64el 1.0.3+git161113-4 [17.7 kB] Get:25 http://ftpmaster.internal/ubuntu bionic/main ppc64el libicu60 ppc64el 60.2-1ubuntu1 [8363 kB] Get:26 http://ftpmaster.internal/ubuntu bionic-proposed/main ppc64el libxml2 ppc64el 2.9.4+dfsg1-5.2ubuntu1 [621 kB] Get:27 http://ftpmaster.internal/ubuntu bionic/main ppc64el gettext-base ppc64el 0.19.8.1-4ubuntu2 [49.7 kB] Get:28 http://ftpmaster.internal/ubuntu bionic/main ppc64el libsigsegv2 ppc64el 2.11-1 [13.3 kB] Get:29 http://ftpmaster.internal/ubuntu bionic/main ppc64el m4 ppc64el 1.4.18-1 [202 kB] Get:30 http://ftpmaster.internal/ubuntu bionic/main ppc64el autoconf all 2.69-11 [322 kB] Get:31 http://ftpmaster.internal/ubuntu bionic/main ppc64el autotools-dev all 20171216.1 [39.7 kB] Get:32 http://ftpmaster.internal/ubuntu bionic/main ppc64el automake all 1:1.15.1-3ubuntu1 [509 kB] Get:33 http://ftpmaster.internal/ubuntu bionic/main ppc64el autopoint all 0.19.8.1-4ubuntu2 [412 kB] Get:34 http://ftpmaster.internal/ubuntu bionic/main ppc64el libtool all 2.4.6-2 [194 kB] Get:35 http://ftpmaster.internal/ubuntu bionic/main ppc64el dh-autoreconf all 15 [15.8 kB] Get:36 http://ftpmaster.internal/ubuntu bionic/main ppc64el libarchive-zip-perl all 1.59-1 [84.0 kB] Get:37 http://ftpmaster.internal/ubuntu bionic/main ppc64el libfile-stripnondeterminism-perl all 0.040-1 [13.9 kB] Get:38 http://ftpmaster.internal/ubuntu bionic/main ppc64el libtimedate-perl all 2.3000-2 [37.5 kB] Get:39 http://ftpmaster.internal/ubuntu bionic/main ppc64el dh-strip-nondeterminism all 0.040-1 [5196 B] Get:40 http://ftpmaster.internal/ubuntu bionic/main ppc64el libcroco3 ppc64el 0.6.12-2 [82.5 kB] Get:41 http://ftpmaster.internal/ubuntu bionic/main ppc64el gettext ppc64el 0.19.8.1-4ubuntu2 [1147 kB] Get:42 http://ftpmaster.internal/ubuntu bionic/main ppc64el intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:43 http://ftpmaster.internal/ubuntu bionic/main ppc64el po-debconf all 1.0.20 [232 kB] Get:44 http://ftpmaster.internal/ubuntu bionic/main ppc64el debhelper all 11ubuntu1 [887 kB] Get:45 http://ftpmaster.internal/ubuntu bionic/universe ppc64el help2man ppc64el 1.47.5 [155 kB] Get:46 http://ftpmaster.internal/ubuntu bionic/main ppc64el zlib1g-dev ppc64el 1:1.2.11.dfsg-0ubuntu2 [178 kB] Get:47 http://ftpmaster.internal/ubuntu bionic/universe ppc64el libtbb2 ppc64el 2017~U7-8 [105 kB] Get:48 http://ftpmaster.internal/ubuntu bionic/universe ppc64el libtbb-dev ppc64el 2017~U7-8 [231 kB] Get:49 http://ftpmaster.internal/ubuntu bionic/universe ppc64el seqan-dev all 1.4.2+dfsg-2 [1096 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 24.0 MB in 1s (21.2 MB/s) (Reading database ... 12560 files and directories currently installed.) 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Setting up groff-base (1.22.3-9) ... Setting up libglib2.0-0:ppc64el (2.54.1-1ubuntu1) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-4ubuntu2) ... Setting up libpipeline1:ppc64el (1.5.0-1) ... Setting up m4 (1.4.18-1) ... Setting up libbsd0:ppc64el (0.8.6-3) ... Setting up libfreetype6:ppc64el (2.8.1-0.1ubuntu2) ... Setting up libmagic-mgc (1:5.32-1) ... Setting up libmagic1:ppc64el (1:5.32-1) ... Setting up libgraphite2-3:ppc64el (1.3.10-8) ... Processing triggers for libc-bin (2.26-0ubuntu2) ... Setting up autotools-dev (20171216.1) ... Setting up liblocale-gettext-perl (1.07-3build2) ... Setting up bsdmainutils (9.0.14ubuntu1) ... 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 libtbb-dev:ppc64el (2017~U7-8) ... Setting up libpython2.7-stdlib:ppc64el (2.7.14-4) ... Setting up autopoint (0.19.8.1-4ubuntu2) ... Setting up seqan-dev (1.4.2+dfsg-2) ... Setting up zlib1g-dev:ppc64el (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (0.040-1) ... Setting up python2.7 (2.7.14-4) ... Setting up libharfbuzz0b:ppc64el (1.7.2-1) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.32-1) ... Setting up libpython-stdlib:ppc64el (2.7.14-4) ... Setting up automake (1:1.15.1-3ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up help2man (1.47.5) ... Setting up man-db (2.7.6.1-4) ... Not building database; man-db/auto-update is not 'true'. Setting up python (2.7.14-4) ... Setting up libtool (2.4.6-2) ... Setting up libicu-le-hb0:ppc64el (1.0.3+git161113-4) ... Setting up libicu60:ppc64el (60.2-1ubuntu1) ... Setting up libxml2:ppc64el (2.9.4+dfsg1-5.2ubuntu1) ... Setting up libcroco3:ppc64el (0.6.12-2) ... Setting up gettext (0.19.8.1-4ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up po-debconf (1.0.20) ... Setting up debhelper (11ubuntu1) ... Setting up dh-autoreconf (15) ... Setting up dh-strip-nondeterminism (0.040-1) ... Setting up sbuild-build-depends-bowtie-dummy (0.invalid.0) ... (Reading database ... 16133 files and directories currently installed.) Purging configuration files for pkg-create-dbgsym (0.73) ... Processing triggers for libc-bin (2.26-0ubuntu2) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-101-generic ppc64el (ppc64le) Toolchain package versions: binutils_2.29.1-12ubuntu1 dpkg-dev_1.19.0.4ubuntu1 g++-7_7.2.0-18ubuntu2 gcc-7_7.2.0-18ubuntu2 libc6-dev_2.26-0ubuntu2 libstdc++-7-dev_7.2.0-18ubuntu2 libstdc++6_7.2.0-18ubuntu2 linux-libc-dev_4.14.0-11.13 Package versions: adduser_3.116ubuntu1 advancecomp_2.0-1 apt_1.6~alpha5 apt-transport-https_1.6~alpha5 autoconf_2.69-11 automake_1:1.15.1-3ubuntu1 autopoint_0.19.8.1-4ubuntu2 autotools-dev_20171216.1 base-files_10ubuntu1 base-passwd_3.5.44 bash_4.4-5ubuntu1 binutils_2.29.1-12ubuntu1 binutils-common_2.29.1-12ubuntu1 binutils-powerpc64le-linux-gnu_2.29.1-12ubuntu1 bsdmainutils_9.0.14ubuntu1 bsdutils_1:2.30.2-0.1ubuntu1 build-essential_12.4ubuntu1 bzip2_1.0.6-8.1 ca-certificates_20170717 coreutils_8.26-3ubuntu4 cpp_4:7.2.0-1ubuntu1 cpp-7_7.2.0-18ubuntu2 dash_0.5.8-2.3ubuntu1 debconf_1.5.65 debhelper_11ubuntu1 debianutils_4.8.3 dh-autoreconf_15 dh-strip-nondeterminism_0.040-1 diffutils_1:3.6-1 dmsetup_2:1.02.137-2ubuntu3 dpkg_1.19.0.4ubuntu1 dpkg-dev_1.19.0.4ubuntu1 e2fslibs_1.43.7-1 e2fsprogs_1.43.7-1 fakeroot_1.21-1ubuntu2 fdisk_2.30.2-0.1ubuntu1 file_1:5.32-1 findutils_4.6.0+git+20170828-2 g++_4:7.2.0-1ubuntu1 g++-7_7.2.0-18ubuntu2 gcc_4:7.2.0-1ubuntu1 gcc-7_7.2.0-18ubuntu2 gcc-7-base_7.2.0-18ubuntu2 gettext_0.19.8.1-4ubuntu2 gettext-base_0.19.8.1-4ubuntu2 gnupg_2.1.15-1ubuntu8 gnupg-agent_2.1.15-1ubuntu8 gpgv_2.1.15-1ubuntu8 grep_3.1-2 groff-base_1.22.3-9 gzip_1.6-5ubuntu1 help2man_1.47.5 hostname_3.18 init_1.49ubuntu1 init-system-helpers_1.49ubuntu1 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.11.0-2ubuntu18 libapt-pkg5.0_1.6~alpha5 libarchive-zip-perl_1.59-1 libasan4_7.2.0-18ubuntu2 libasn1-8-heimdal_7.5.0+dfsg-1 libassuan0_2.5.1-1 libatomic1_7.2.0-18ubuntu2 libattr1_1:2.4.47-2build1 libaudit-common_1:2.7.7-1ubuntu2 libaudit1_1:2.7.7-1ubuntu2 libbinutils_2.29.1-12ubuntu1 libblkid1_2.30.2-0.1ubuntu1 libbsd0_0.8.6-3 libbz2-1.0_1.0.6-8.1 libc-bin_2.26-0ubuntu2 libc-dev-bin_2.26-0ubuntu2 libc6_2.26-0ubuntu2 libc6-dev_2.26-0ubuntu2 libcap-ng0_0.7.7-3.1 libcap2_1:2.25-1.2 libcc1-0_7.2.0-18ubuntu2 libcomerr2_1.43.7-1 libcroco3_0.6.12-2 libcryptsetup4_2:1.7.3-4ubuntu1 libcurl3-gnutls_7.57.0-1ubuntu1 libdb5.3_5.3.28-13.1 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.137-2ubuntu3 libdpkg-perl_1.19.0.4ubuntu1 libexpat1_2.2.5-2 libfakeroot_1.21-1ubuntu2 libfdisk1_2.30.2-0.1ubuntu1 libffi6_3.2.1-7 libfile-stripnondeterminism-perl_0.040-1 libfreetype6_2.8.1-0.1ubuntu2 libgcc-7-dev_7.2.0-18ubuntu2 libgcc1_1:7.2.0-18ubuntu2 libgcrypt20_1.8.1-4 libgdbm3_1.8.3-14 libglib2.0-0_2.54.1-1ubuntu1 libgmp10_2:6.1.2+dfsg-1.1 libgnutls30_3.5.8-6ubuntu3 libgomp1_7.2.0-18ubuntu2 libgpg-error0_1.27-5 libgraphite2-3_1.3.10-8 libgssapi-krb5-2_1.15.1-2 libgssapi3-heimdal_7.5.0+dfsg-1 libharfbuzz0b_1.7.2-1 libhcrypto4-heimdal_7.5.0+dfsg-1 libheimbase1-heimdal_7.5.0+dfsg-1 libheimntlm0-heimdal_7.5.0+dfsg-1 libhogweed4_3.4-1 libhx509-5-heimdal_7.5.0+dfsg-1 libicu-le-hb0_1.0.3+git161113-4 libicu60_60.2-1ubuntu1 libidn11_1.33-2.1 libidn2-0_2.0.4-1 libip4tc0_1.6.1-2ubuntu2 libisl15_0.18-1 libitm1_7.2.0-18ubuntu2 libk5crypto3_1.15.1-2 libkeyutils1_1.5.9-9.2ubuntu1 libkmod2_24-1ubuntu2 libkrb5-26-heimdal_7.5.0+dfsg-1 libkrb5-3_1.15.1-2 libkrb5support0_1.15.1-2 libksba8_1.3.5-2 libldap-2.4-2_2.4.45+dfsg-1ubuntu1 libldap-common_2.4.45+dfsg-1ubuntu1 liblocale-gettext-perl_1.07-3build2 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_7.2.0-18ubuntu2 liblz4-1_0.0~r131-2ubuntu2 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.32-1 libmagic1_1:5.32-1 libmount1_2.30.2-0.1ubuntu1 libmpc3_1.0.3-2 libmpfr4_3.1.6-1 libncurses5_6.0+20160625-1ubuntu1 libncursesw5_6.0+20160625-1ubuntu1 libnettle6_3.4-1 libnghttp2-14_1.28.0-1 libnpth0_1.5-3 libp11-kit0_0.23.9-2 libpam-modules_1.1.8-3.2ubuntu3 libpam-modules-bin_1.1.8-3.2ubuntu3 libpam-runtime_1.1.8-3.2ubuntu3 libpam0g_1.1.8-3.2ubuntu3 libpcre3_2:8.39-8 libperl5.26_5.26.1-3 libpipeline1_1.5.0-1 libpng16-16_1.6.34-1 libprocps6_2:3.3.12-1ubuntu2 libpsl5_0.19.1-4 libpython-stdlib_2.7.14-4 libpython2.7-minimal_2.7.14-4 libpython2.7-stdlib_2.7.14-4 libreadline7_7.0-0ubuntu2 libroken18-heimdal_7.5.0+dfsg-1 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu1 libseccomp2_2.3.1-2.1ubuntu3 libselinux1_2.7-2 libsemanage-common_2.7-2 libsemanage1_2.7-2 libsepol1_2.7-1 libsigsegv2_2.11-1 libslang2_2.3.1-5ubuntu1 libsmartcols1_2.30.2-0.1ubuntu1 libsqlite3-0_3.21.0-1 libss2_1.43.7-1 libssl1.0.0_1.0.2g-1ubuntu15 libstdc++-7-dev_7.2.0-18ubuntu2 libstdc++6_7.2.0-18ubuntu2 libsystemd0_235-3ubuntu3 libtasn1-6_4.12-3 libtbb-dev_2017~U7-8 libtbb2_2017~U7-8 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-2 libtsan0_7.2.0-18ubuntu2 libubsan0_7.2.0-18ubuntu2 libudev1_235-3ubuntu3 libunistring0_0.9.3-5.2ubuntu1 libusb-0.1-4_2:0.1.12-31 libustr-1.0-1_1.0.4-6 libuuid1_2.30.2-0.1ubuntu1 libwind0-heimdal_7.5.0+dfsg-1 libxml2_2.9.4+dfsg1-5.2ubuntu1 linux-libc-dev_4.14.0-11.13 lockfile-progs_0.1.17build1 login_1:4.2-3.2ubuntu4 lsb-base_9.20170808ubuntu1 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-4 mawk_1.3.3-17ubuntu2 mime-support_3.60ubuntu1 mount_2.30.2-0.1ubuntu1 multiarch-support_2.26-0ubuntu2 ncurses-base_6.0+20160625-1ubuntu1 ncurses-bin_6.0+20160625-1ubuntu1 openssl_1.0.2g-1ubuntu15 optipng_0.7.6-1.1 passwd_1:4.2-3.2ubuntu4 patch_2.7.5-1build1 perl_5.26.1-3 perl-base_5.26.1-3 perl-modules-5.26_5.26.1-3 pinentry-curses_1.0.0-3 pkgbinarymangler_131 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.12-1ubuntu2 python_2.7.14-4 python-minimal_2.7.14-4 python2.7_2.7.14-4 python2.7-minimal_2.7.14-4 readline-common_7.0-0ubuntu2 sbuild-build-depends-bowtie-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.11 seqan-dev_1.4.2+dfsg-2 systemd_235-3ubuntu3 systemd-sysv_235-3ubuntu3 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu1 tar_1.29b-2 tzdata_2017c-1 ubuntu-keyring_2016.10.27 util-linux_2.30.2-0.1ubuntu1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Dec 18 19:20:31 2017 UTC gpgv: using RSA key gpgv: issuer "tillea@rki.de" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./bowtie_1.2.2+dfsg-1.dsc dpkg-source: info: extracting bowtie in bowtie-1.2.2+dfsg dpkg-source: info: unpacking bowtie_1.2.2+dfsg.orig.tar.xz dpkg-source: info: unpacking bowtie_1.2.2+dfsg-1.debian.tar.xz dpkg-source: info: applying no_hash_style_both_for_mips.patch dpkg-source: info: applying use-dpkg-buildflags.patch dpkg-source: info: applying use_debian_seqan.patch dpkg-source: info: applying seqan-fix-setBegin-call.patch dpkg-source: info: applying seqan-rename-ChunkPool.patch dpkg-source: info: applying seqan-rename-fill-to-resize.patch dpkg-source: info: applying disable_bits_flag.patch dpkg-source: info: applying seqan-popcount.patch dpkg-source: info: applying bowtie_ContextLss-1.1-1.4.patch dpkg-source: info: applying ppc64el.patch dpkg-source: info: applying enable_arm64.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying reproducible.patch dpkg-source: info: applying gcc-64bit.patch dpkg-source: info: applying build-as-Cpp03.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-13871873 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-13871873 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-13871873 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package bowtie dpkg-buildpackage: info: source version 1.2.2+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build bowtie-1.2.2+dfsg dpkg-buildpackage: info: host architecture ppc64el fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>/bowtie-1.2.2+dfsg' rm -f .bowtie* dh_auto_clean make -j4 clean make[2]: Entering directory '/<>/bowtie-1.2.2+dfsg' rm -f bowtie-build-s bowtie-build-l bowtie-align-s bowtie-align-l bowtie-inspect-s bowtie-inspect-l bowtie-build-s-debug bowtie-build-l-debug bowtie-align-s-debug bowtie-align-l-debug bowtie-inspect-s-debug bowtie-inspect-l-debug \ bowtie_prof \ bowtie-build-s.exe bowtie-build-l.exe bowtie-align-s.exe bowtie-align-l.exe bowtie-inspect-s.exe bowtie-inspect-l.exe bowtie-build-s-debug.exe bowtie-build-l-debug.exe bowtie-align-s-debug.exe bowtie-align-l-debug.exe bowtie-inspect-s-debug.exe bowtie-inspect-l-debug.exe bowtie_prof.exe \ bowtie-src.zip bowtie-bin.zip rm -f core.* rm -f bowtie-align-s-master* bowtie-align-s-no-io* rm -rf .lib .include make[2]: Leaving directory '/<>/bowtie-1.2.2+dfsg' make[1]: Leaving directory '/<>/bowtie-1.2.2+dfsg' dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>/bowtie-1.2.2+dfsg' /usr/bin/make allall make[2]: Entering directory '/<>/bowtie-1.2.2+dfsg' g++ -O3 -DCOMPILER_OPTIONS="\"-O3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DNDEBUG -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-build-s ebwt_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp bowtie_build_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_build.cpp:11: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_build.cpp:11: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt.h:39:0, from ebwt_build.cpp:11: reference.h: In member function ‘int BitPairReference::getStretch(uint32_t*, size_t, size_t, size_t) const’: reference.h:534:13: warning: variable ‘origBufOff’ set but not used [-Wunused-but-set-variable] uint64_t origBufOff = bufOff; ^~~~~~~~~~ In file included from ebwt_build.cpp:11:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Alloc<> >; TIndexOffU = unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < length(_sampleSuffs) + 1; i++) { ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Packed<> >; TIndexOffU = unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O3 -DCOMPILER_OPTIONS="\"-O3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-build-l ebwt_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp bowtie_build_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_build.cpp:11: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_build.cpp:11: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt.h:39:0, from ebwt_build.cpp:11: reference.h: In member function ‘int BitPairReference::getStretch(uint32_t*, size_t, size_t, size_t) const’: reference.h:534:13: warning: variable ‘origBufOff’ set but not used [-Wunused-but-set-variable] uint64_t origBufOff = bufOff; ^~~~~~~~~~ In file included from ebwt_build.cpp:11:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Alloc<> >; TIndexOffU = long unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < length(_sampleSuffs) + 1; i++) { ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Packed<> >; TIndexOffU = long unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O3 -DCOMPILER_OPTIONS="\"-O3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DNDEBUG -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-align-s ebwt_search.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp qual.cpp pat.cpp ebwt_search_util.cpp ref_aligner.cpp log.cpp hit_set.cpp sam.cpp color.cpp color_dec.cpp hit.cpp bowtie_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_search.cpp:21: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_search.cpp:21: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_search.cpp:21: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt.h:39:0, from ebwt_search.cpp:21: reference.h: In member function ‘int BitPairReference::getStretch(uint32_t*, size_t, size_t, size_t) const’: reference.h:534:13: warning: variable ‘origBufOff’ set but not used [-Wunused-but-set-variable] uint64_t origBufOff = bufOff; ^~~~~~~~~~ In file included from ebwt_search.cpp:21:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ pat.cpp: In member function ‘std::pair PatternSourcePerThread::nextReadPair()’: pat.cpp:109:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] bool this_is_last = buf_.cur_buf_ == last_batch_size_-1; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:711:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff - trim3; i++) { ~~^~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaContinuousPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:888:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff; i++) { ~~^~~~~~~~ In file included from ebwt_search_util.h:9:0, from ebwt_search_util.cpp:1: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from sam.cpp:12:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from hit.cpp:1:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { g++ -O3 -DCOMPILER_OPTIONS="\"-O3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DNDEBUG -DBOWTIE_64BIT_INDEX -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-align-l ebwt_search.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp qual.cpp pat.cpp ebwt_search_util.cpp ref_aligner.cpp log.cpp hit_set.cpp sam.cpp color.cpp color_dec.cpp hit.cpp bowtie_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_search.cpp:21: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_search.cpp:21: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_search.cpp:21: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt.h:39:0, from ebwt_search.cpp:21: reference.h: In member function ‘int BitPairReference::getStretch(uint32_t*, size_t, size_t, size_t) const’: reference.h:534:13: warning: variable ‘origBufOff’ set but not used [-Wunused-but-set-variable] uint64_t origBufOff = bufOff; ^~~~~~~~~~ In file included from ebwt_search.cpp:21:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ pat.cpp: In member function ‘std::pair PatternSourcePerThread::nextReadPair()’: pat.cpp:109:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] bool this_is_last = buf_.cur_buf_ == last_batch_size_-1; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:711:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff - trim3; i++) { ~~^~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaContinuousPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:888:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff; i++) { ~~^~~~~~~~ In file included from ebwt_search_util.h:9:0, from ebwt_search_util.cpp:1: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from sam.cpp:12:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from hit.cpp:1:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { g++ -O3 \ -DCOMPILER_OPTIONS="\"-O3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan -I . \ -o bowtie-inspect-s bowtie_inspect.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from bowtie_inspect.cpp:10: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from bowtie_inspect.cpp:10: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from bowtie_inspect.cpp:10: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from bowtie_inspect.cpp:10:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O3 \ -DCOMPILER_OPTIONS="\"-O3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DBOWTIE_64BIT_INDEX -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan -I . \ -o bowtie-inspect-l bowtie_inspect.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from bowtie_inspect.cpp:10: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from bowtie_inspect.cpp:10: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from bowtie_inspect.cpp:10: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from bowtie_inspect.cpp:10:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O0 -g3 -DCOMPILER_OPTIONS="\"-O0 -g3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-build-s-debug ebwt_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp bowtie_build_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_build.cpp:11: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_build.cpp:11: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt_build.cpp:11:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Alloc<> >; TIndexOffU = unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < length(_sampleSuffs) + 1; i++) { ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ebwt_build.cpp:9:0: blockwise_sa.h: In instantiation of ‘void KarkkainenBlockwiseSA::nextBlock(int, int) [with TStr = seqan::String, seqan::Alloc<> >]’: ebwt_build.cpp:673:1: required from here assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:973:3: note: in expansion of macro ‘assert_lt’ assert_lt(tid, length(this->_itrBuckets)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:1054:5: note: in expansion of macro ‘assert_lt’ assert_lt(cur_block, length(_sampleSuffs)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Packed<> >; TIndexOffU = unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < length(_sampleSuffs) + 1; i++) { ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ebwt_build.cpp:9:0: blockwise_sa.h: In instantiation of ‘void KarkkainenBlockwiseSA::nextBlock(int, int) [with TStr = seqan::String, seqan::Packed<> >]’: ebwt_build.cpp:673:1: required from here assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:973:3: note: in expansion of macro ‘assert_lt’ assert_lt(tid, length(this->_itrBuckets)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:1054:5: note: in expansion of macro ‘assert_lt’ assert_lt(cur_block, length(_sampleSuffs)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O0 -g3 -DCOMPILER_OPTIONS="\"-O0 -g3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DBOWTIE_64BIT_INDEX -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-build-l-debug ebwt_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp bowtie_build_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_build.cpp:11: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_build.cpp:11: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt_build.cpp:11:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Alloc<> >; TIndexOffU = long unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < length(_sampleSuffs) + 1; i++) { ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ebwt_build.cpp:9:0: blockwise_sa.h: In instantiation of ‘void KarkkainenBlockwiseSA::nextBlock(int, int) [with TStr = seqan::String, seqan::Alloc<> >]’: ebwt_build.cpp:673:1: required from here assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:973:3: note: in expansion of macro ‘assert_lt’ assert_lt(tid, length(this->_itrBuckets)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:1054:5: note: in expansion of macro ‘assert_lt’ assert_lt(cur_block, length(_sampleSuffs)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ In file included from ebwt.h:27:0, from ebwt_build.cpp:11: blockwise_sa.h: In instantiation of ‘TIndexOffU KarkkainenBlockwiseSA::nextSuffix() [with TStr = seqan::String, seqan::Packed<> >; TIndexOffU = long unsigned int]’: ebwt_build.cpp:673:1: required from here blockwise_sa.h:297:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < length(_sampleSuffs) + 1; i++) { ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ebwt_build.cpp:9:0: blockwise_sa.h: In instantiation of ‘void KarkkainenBlockwiseSA::nextBlock(int, int) [with TStr = seqan::String, seqan::Packed<> >]’: ebwt_build.cpp:673:1: required from here assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:973:3: note: in expansion of macro ‘assert_lt’ assert_lt(tid, length(this->_itrBuckets)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ assert_helpers.h:176:9: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!(a < b)) { \ ~~~^~~~ blockwise_sa.h:1054:5: note: in expansion of macro ‘assert_lt’ assert_lt(cur_block, length(_sampleSuffs)); ^ assert_helpers.h:207:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(!((a) <= (b))) { \ ~~~~~^~~~~~~ assert_helpers.h:207:11: note: in definition of macro ‘assert_leq’ if(!((a) <= (b))) { \ ^~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O0 -g3 \ -DCOMPILER_OPTIONS="\"-O0 -g3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-align-s-debug ebwt_search.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp qual.cpp pat.cpp ebwt_search_util.cpp ref_aligner.cpp log.cpp hit_set.cpp sam.cpp color.cpp color_dec.cpp hit.cpp bowtie_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_search.cpp:21: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_search.cpp:21: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_search.cpp:21: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt_search.cpp:21:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ pat.cpp: In member function ‘std::pair PatternSourcePerThread::nextReadPair()’: pat.cpp:109:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] bool this_is_last = buf_.cur_buf_ == last_batch_size_-1; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:711:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff - trim3; i++) { ~~^~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaContinuousPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:888:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff; i++) { ~~^~~~~~~~ In file included from ebwt_search_util.h:9:0, from ebwt_search_util.cpp:1: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from sam.cpp:12:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from hit.cpp:1:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { g++ -O0 -g3 \ -DCOMPILER_OPTIONS="\"-O0 -g3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DBOWTIE_64BIT_INDEX -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan \ -o bowtie-align-l-debug ebwt_search.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp qual.cpp pat.cpp ebwt_search_util.cpp ref_aligner.cpp log.cpp hit_set.cpp sam.cpp color.cpp color_dec.cpp hit.cpp bowtie_main.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from ebwt_search.cpp:21: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from ebwt_search.cpp:21: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from ebwt_search.cpp:21: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from ebwt_search.cpp:21:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ pat.cpp: In member function ‘std::pair PatternSourcePerThread::nextReadPair()’: pat.cpp:109:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] bool this_is_last = buf_.cur_buf_ == last_batch_size_-1; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:711:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff - trim3; i++) { ~~^~~~~~~~~~~~~~~~ pat.cpp: In member function ‘virtual bool FastaContinuousPatternSource::parse(Read&, Read&, TReadId) const’: pat.cpp:888:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(size_t i = 0; i < seqoff; i++) { ~~^~~~~~~~ In file included from ebwt_search_util.h:9:0, from ebwt_search_util.cpp:1: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from sam.cpp:12:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from hit.cpp:1:0: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { g++ -O0 -g3 \ -DCOMPILER_OPTIONS="\"-O0 -g3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan -I . \ -o bowtie-inspect-s-debug bowtie_inspect.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from bowtie_inspect.cpp:10: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from bowtie_inspect.cpp:10: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from bowtie_inspect.cpp:10: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from bowtie_inspect.cpp:10:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ g++ -O0 -g3 \ -DCOMPILER_OPTIONS="\"-O0 -g3 -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=.=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now\"" -Wl,--hash-style=both -DWITH_TBB -Wdate-time -D_FORTIFY_SOURCE=2 -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O3 -fdebug-prefix-map=/<>/bowtie-1.2.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now \ -fno-strict-aliasing -DBOWTIE_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"Debian-reproducible\"" -DBUILD_TIME="\"`dpkg-parsechangelog --show-field Date`\"" -DCOMPILER_VERSION="\"`g++ -v 2>&1 | tail -1 | sed 's/ *(.*//'`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE_SHARED_MEM -DBOWTIE_64BIT_INDEX -Wall -Wno-unused-parameter -Wno-reorder -Wno-unused-local-typedefs \ -isystem /usr/include/seqan -I . \ -o bowtie-inspect-l-debug bowtie_inspect.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp ebwt.cpp \ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -lz -lpthread -ltbb -ltbbmalloc_proxy In file included from blockwise_sa.h:19:0, from ebwt.h:27, from bowtie_inspect.cpp:10: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:162:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~ diff_sample.h:162:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d1]) diffCnt++; diffs[d1] = true; ^~~~~ diff_sample.h:163:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~ diff_sample.h:163:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(!diffs[d2]) diffCnt++; diffs[d2] = true; ^~~~~ In file included from ebwt.h:27:0, from bowtie_inspect.cpp:10: blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: blockwise_sa.h:204:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~ blockwise_sa.h:204:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample ^~~ In file included from ebwt.h:31:0, from bowtie_inspect.cpp:10: hit.h: In member function ‘void HitSink::maybeFlush(size_t)’: hit.h:609:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(ptCounts_[threadId] >= perThreadBufSize_) { In file included from bowtie_inspect.cpp:10:0: ebwt.h: In destructor ‘Ebwt::~Ebwt()’: ebwt.h:825:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~ ebwt.h:825:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_fchr != NULL) delete[] _fchr; _fchr = NULL; ^~~~~ ebwt.h:826:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~ ebwt.h:826:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_ftab != NULL) delete[] _ftab; _ftab = NULL; ^~~~~ ebwt.h:827:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~ ebwt.h:827:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_eftab != NULL) delete[] _eftab; _eftab = NULL; ^~~~~~ ebwt.h:833:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_isa != NULL) delete[] _isa; _isa = NULL; ^~ ebwt.h:833:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_isa != NULL) delete[] _isa; _isa = NULL; ^~~~ ebwt.h:834:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_plen != NULL) delete[] _plen; _plen = NULL; ^~ ebwt.h:834:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_plen != NULL) delete[] _plen; _plen = NULL; ^~~~~ ebwt.h:835:4: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~ ebwt.h:835:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if(_rstarts != NULL) delete[] _rstarts; _rstarts = NULL; ^~~~~~~~ alphabet.cpp:293:1: warning: narrowing conversion of ‘-1’ from ‘int’ to ‘char’ inside { } is ill-formed in C++11 [-Wnarrowing] }; ^ make[2]: Leaving directory '/<>/bowtie-1.2.2+dfsg' make[1]: Leaving directory '/<>/bowtie-1.2.2+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/<>/bowtie-1.2.2+dfsg' ln -s debian/tests sh debian/tests/run-unit-test test_at_build_time # reads processed: 1 # reads with at least one reported alignment: 1 (100.00%) # reads that failed to align: 0 (0.00%) Reported 5 alignments example1 OK # reads processed: 1 # reads with at least one reported alignment: 1 (100.00%) # reads that failed to align: 0 (0.00%) Reported 3 alignments example2 OK # reads processed: 1 # reads with at least one reported alignment: 1 (100.00%) # reads that failed to align: 0 (0.00%) Reported 5 alignments example3 OK # reads processed: 1 # reads with at least one reported alignment: 1 (100.00%) # reads that failed to align: 0 (0.00%) Reported 1 alignments example4 OK # reads processed: 1 # reads with at least one reported alignment: 1 (100.00%) # reads that failed to align: 0 (0.00%) Reported 5 alignments example5 OK example7 OK # reads processed: 1 # reads with at least one reported alignment: 1 (100.00%) # reads that failed to align: 0 (0.00%) Reported 5 alignments example8 OK rm -f tests examples[0-9].out make[1]: Leaving directory '/<>/bowtie-1.2.2+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a debian/rules override_dh_auto_install-arch make[1]: Entering directory '/<>/bowtie-1.2.2+dfsg' # remove strange byte-compyled Python code bowtie-buildc (no idea how and why it was created) find . -name bowtie-buildc -delete find . -name .cvsignore -delete make[1]: Leaving directory '/<>/bowtie-1.2.2+dfsg' dh_install -a dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installman-arch make[1]: Entering directory '/<>/bowtie-1.2.2+dfsg' help2man --name="ultrafast memory-efficient short read aligner" --no-info \ /<>/bowtie-1.2.2+dfsg/bowtie > /<>/bowtie-1.2.2+dfsg/debian/bowtie/usr/share/man/man1/bowtie.1 help2man --name="building a colorspace index for bowtie" --no-info \ /<>/bowtie-1.2.2+dfsg/bowtie-build > /<>/bowtie-1.2.2+dfsg/debian/bowtie/usr/share/man/man1/bowtie-build.1 help2man --name="extracts information from a bowtie index" --no-info \ /<>/bowtie-1.2.2+dfsg/bowtie-inspect > /<>/bowtie-1.2.2+dfsg/debian/bowtie/usr/share/man/man1/bowtie-inspect.1 make[1]: Leaving directory '/<>/bowtie-1.2.2+dfsg' dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/<>/bowtie-1.2.2+dfsg' dh_compress -X.ebwt make[1]: Leaving directory '/<>/bowtie-1.2.2+dfsg' dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 131 INFO: pkgstriptranslations version 131 pkgstriptranslations: processing bowtie (in debian/bowtie); do_strip: , oemstrip: pkgstriptranslations: processing bowtie-dbgsym (in debian/.debhelper/bowtie/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/bowtie/DEBIAN/control, package bowtie, directory debian/bowtie pkgstripfiles: processing control file: debian/.debhelper/bowtie/dbgsym-root/DEBIAN/control, package bowtie-dbgsym, directory debian/.debhelper/bowtie/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package bowtie-dbgsym ... pkgstripfiles: Truncating usr/share/doc/bowtie/changelog.Debian.gz to topmost ten records pkgstripfiles: No PNG files. dpkg-deb: building package 'bowtie-dbgsym' in 'debian/.debhelper/scratch-space/build-bowtie/bowtie-dbgsym_1.2.2+dfsg-1_ppc64el.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package bowtie ... pkgstripfiles: No PNG files. dpkg-deb: building package 'bowtie' in '../bowtie_1.2.2+dfsg-1_ppc64el.deb'. Renaming bowtie-dbgsym_1.2.2+dfsg-1_ppc64el.deb to bowtie-dbgsym_1.2.2+dfsg-1_ppc64el.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../bowtie_1.2.2+dfsg-1_ppc64el.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build bowtie-1.2.2+dfsg dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20171218-2314 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ bowtie_1.2.2+dfsg-1_ppc64el.changes: ------------------------------------ Format: 1.8 Date: Sat, 16 Dec 2017 19:17:18 +0100 Source: bowtie Binary: bowtie bowtie-examples Architecture: ppc64el Version: 1.2.2+dfsg-1 Distribution: bionic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Alexandre Mestiashvili Description: bowtie - Ultrafast memory-efficient short read aligner bowtie-examples - Examples for bowtie, the ultrafast memory-efficient short read al Changes: bowtie (1.2.2+dfsg-1) unstable; urgency=medium . * New upstream version 1.2.2~beta+dfsg * Refresh patches * New upstream version 1.2.2+dfsg * Refresh patches * Bump Standards-Version to 4.1.2 * Update copyright, note license change to Artistic License 2.0 Checksums-Sha1: e9e44231cb2ec1751f41ce72cbc47a1a7da011a4 17567780 bowtie-dbgsym_1.2.2+dfsg-1_ppc64el.ddeb a914b50a117c017f6115516938ad1b205b328b1c 5668 bowtie_1.2.2+dfsg-1_ppc64el.buildinfo 290eec11dc1bbaabdd2e6fce2b5585bbf2d78caa 1516428 bowtie_1.2.2+dfsg-1_ppc64el.deb Checksums-Sha256: a7658abbc988f5b591d4c23f924669eedc33a67b2ab719ea7bafeec39a102471 17567780 bowtie-dbgsym_1.2.2+dfsg-1_ppc64el.ddeb 5adcda81f36f8d8cf67bcdc138c562719a0d5e72eb61d4a54408b0842d22aa7c 5668 bowtie_1.2.2+dfsg-1_ppc64el.buildinfo fd4daaa0a37e4bb24bf868db11bc92bfafe98059259cbce088e44369491b9875 1516428 bowtie_1.2.2+dfsg-1_ppc64el.deb Files: 0a1286431600153b4afc89222a0c2fb8 17567780 debug optional bowtie-dbgsym_1.2.2+dfsg-1_ppc64el.ddeb d6eb49c53d4d7f864f85eabbae77aa57 5668 science optional bowtie_1.2.2+dfsg-1_ppc64el.buildinfo 3ec0ab8a3918c0c855a72ef5046ac139 1516428 science optional bowtie_1.2.2+dfsg-1_ppc64el.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ bowtie_1.2.2+dfsg-1_ppc64el.deb ------------------------------- new debian package, version 2.0. size 1516428 bytes: control archive=1920 bytes. 1116 bytes, 22 lines control 2653 bytes, 40 lines md5sums Package: bowtie Version: 1.2.2+dfsg-1 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 8803 Depends: libc6 (>= 2.17), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2), libtbb2, zlib1g (>= 1:1.2.6), python Suggests: bowtie-examples Section: science Priority: optional Homepage: http://bowtie-bio.sourceforge.net/ Description: Ultrafast memory-efficient short read aligner This package addresses the problem to interpret the results from the latest (2010) DNA sequencing technologies. Those will yield fairly short stretches and those cannot be interpreted directly. It is the challenge for tools like Bowtie to give a chromosomal location to the short stretches of DNA sequenced per run. . Bowtie aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end). drwxr-xr-x root/root 0 2017-12-16 18:17 ./ drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/ drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/bin/ -rwxr-xr-x root/root 3579 2017-12-11 18:54 ./usr/bin/bowtie -rwxr-xr-x root/root 799416 2017-12-16 18:17 ./usr/bin/bowtie-align-l -rwxr-xr-x root/root 1585848 2017-12-16 18:17 ./usr/bin/bowtie-align-l-debug -rwxr-xr-x root/root 799416 2017-12-16 18:17 ./usr/bin/bowtie-align-s -rwxr-xr-x root/root 1585848 2017-12-16 18:17 ./usr/bin/bowtie-align-s-debug -rwxr-xr-x root/root 2807 2017-12-11 18:54 ./usr/bin/bowtie-build -rwxr-xr-x root/root 405696 2017-12-16 18:17 ./usr/bin/bowtie-build-l -rwxr-xr-x root/root 929984 2017-12-16 18:17 ./usr/bin/bowtie-build-l-debug -rwxr-xr-x root/root 405696 2017-12-16 18:17 ./usr/bin/bowtie-build-s -rwxr-xr-x root/root 929984 2017-12-16 18:17 ./usr/bin/bowtie-build-s-debug -rwxr-xr-x root/root 2501 2017-12-11 18:54 ./usr/bin/bowtie-inspect -rwxr-xr-x root/root 336912 2017-12-16 18:17 ./usr/bin/bowtie-inspect-l -rwxr-xr-x root/root 336912 2017-12-16 18:17 ./usr/bin/bowtie-inspect-l-debug -rwxr-xr-x root/root 336912 2017-12-16 18:17 ./usr/bin/bowtie-inspect-s -rwxr-xr-x root/root 336912 2017-12-16 18:17 ./usr/bin/bowtie-inspect-s-debug drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/ drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/doc-base/ -rw-r--r-- root/root 1010 2017-12-16 18:17 ./usr/share/doc-base/bowtie drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/doc/ drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/doc/bowtie/ -rw-r--r-- root/root 21642 2017-12-16 18:17 ./usr/share/doc/bowtie/MANUAL.gz -rw-r--r-- root/root 13210 2017-12-11 18:54 ./usr/share/doc/bowtie/NEWS.gz -rw-r--r-- root/root 1872 2017-12-16 18:17 ./usr/share/doc/bowtie/README.Debian.gz -rw-r--r-- root/root 344 2017-12-16 18:17 ./usr/share/doc/bowtie/README.test -rw-r--r-- root/root 2614 2017-12-11 18:54 ./usr/share/doc/bowtie/TUTORIAL.gz -rw-r--r-- root/root 1704 2017-12-16 18:17 ./usr/share/doc/bowtie/changelog.Debian.gz -rw-r--r-- root/root 10028 2017-12-16 18:17 ./usr/share/doc/bowtie/copyright -rw-r--r-- root/root 107930 2017-12-16 18:17 ./usr/share/doc/bowtie/manual.html -rw-r--r-- root/root 4182 2017-12-11 18:54 ./usr/share/doc/bowtie/style.css drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/ -rw-r--r-- root/root 255 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example1.out -rw-r--r-- root/root 151 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example2.out -rw-r--r-- root/root 255 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example3.out -rw-r--r-- root/root 53 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example4.out -rw-r--r-- root/root 255 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example5.out -rw-r--r-- root/root 572 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example5.out.diff -rw-r--r-- root/root 46 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example6.out -rw-r--r-- root/root 14 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example7.out -rw-r--r-- root/root 255 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example8.out -rw-r--r-- root/root 46 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/example9.out -rw-r--r-- root/root 2074 2017-12-16 18:17 ./usr/share/doc/bowtie/tests/run-unit-test drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/lintian/ drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 692 2017-12-16 18:17 ./usr/share/lintian/overrides/bowtie drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/man/ drwxr-xr-x root/root 0 2017-12-16 18:17 ./usr/share/man/man1/ lrwxrwxrwx root/root 0 2017-12-16 18:17 ./usr/share/man/man1/bowtie-build-debug.1.gz -> bowtie-build.1.gz -rw-r--r-- root/root 1241 2017-12-16 18:17 ./usr/share/man/man1/bowtie-build.1.gz lrwxrwxrwx root/root 0 2017-12-16 18:17 ./usr/share/man/man1/bowtie-debug.1.gz -> bowtie.1.gz lrwxrwxrwx root/root 0 2017-12-16 18:17 ./usr/share/man/man1/bowtie-inspect-debug.1.gz -> bowtie-inspect.1.gz -rw-r--r-- root/root 985 2017-12-16 18:17 ./usr/share/man/man1/bowtie-inspect.1.gz -rw-r--r-- root/root 667 2017-12-16 18:17 ./usr/share/man/man1/bowtie.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: ppc64el Build-Space: 135888 Build-Time: 441 Distribution: bionic-proposed Host Architecture: ppc64el Install-Time: 10 Job: bowtie_1.2.2+dfsg-1.dsc Machine Architecture: ppc64el Package: bowtie Package-Time: 454 Source-Version: 1.2.2+dfsg-1 Space: 135888 Status: successful Version: 1.2.2+dfsg-1 -------------------------------------------------------------------------------- Finished at 20171218-2314 Build needed 00:07:34, 135888k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 Scanning for processes to kill in build PACKAGEBUILD-13871873 RUN: /usr/share/launchpad-buildd/slavebin/in-target umount-chroot --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 Stopping target for build PACKAGEBUILD-13871873 RUN: /usr/share/launchpad-buildd/slavebin/in-target remove-build --backend=chroot --series=bionic --arch=ppc64el PACKAGEBUILD-13871873 Removing build PACKAGEBUILD-13871873