RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: 2.6.24-31-server #1 SMP Wed Mar 7 00:23:46 UTC 2012 i686 Buildd toolchain package versions: launchpad-buildd_113~0.IS.08.04 python-lpbuildd_113~0.IS.08.04 bzr_2.4.0-0ubuntu2~11.IS.8.04. Syncing the system clock with the buildd NTP service... 25 May 09:27:18 ntpdate[5421]: adjust time server 10.211.37.1 offset 0.001285 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '8ed1a2829186ed195cb32a72d9b3ac646af52291', '/home/buildd/filecache-default/b492633b27396981ae3195675b9b8470b22ba427'] Unpacking chroot for build 8ed1a2829186ed195cb32a72d9b3ac646af52291 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '8ed1a2829186ed195cb32a72d9b3ac646af52291'] Mounting chroot for build 8ed1a2829186ed195cb32a72d9b3ac646af52291 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '8ed1a2829186ed195cb32a72d9b3ac646af52291', 'deb http://ftpmaster.internal/ubuntu quantal main restricted universe multiverse'] Overriding sources.list in build-8ed1a2829186ed195cb32a72d9b3ac646af52291 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '8ed1a2829186ed195cb32a72d9b3ac646af52291', 'i386'] Updating debian chroot for build 8ed1a2829186ed195cb32a72d9b3ac646af52291 Ign http://ftpmaster.internal quantal InRelease Get:1 http://ftpmaster.internal quantal Release.gpg [198 B] Get:2 http://ftpmaster.internal quantal Release [49.6 kB] Get:3 http://ftpmaster.internal quantal/main i386 Packages [1290 kB] Get:4 http://ftpmaster.internal quantal/restricted i386 Packages [8497 B] Get:5 http://ftpmaster.internal quantal/universe i386 Packages [5059 kB] Get:6 http://ftpmaster.internal quantal/multiverse i386 Packages [124 kB] Get:7 http://ftpmaster.internal quantal/main TranslationIndex [74 B] Get:8 http://ftpmaster.internal quantal/multiverse TranslationIndex [73 B] Get:9 http://ftpmaster.internal quantal/restricted TranslationIndex [72 B] Get:10 http://ftpmaster.internal quantal/universe TranslationIndex [75 B] Get:11 http://ftpmaster.internal quantal/main Translation-en [720 kB] Get:12 http://ftpmaster.internal quantal/multiverse Translation-en [94.1 kB] Get:13 http://ftpmaster.internal quantal/restricted Translation-en [2401 B] Get:14 http://ftpmaster.internal quantal/universe Translation-en [3512 kB] Fetched 10.9 MB in 15s (704 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: grep libasn1-8-heimdal libdb5.1 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libkrb5-26-heimdal libpng12-0 libroken18-heimdal libsqlite3-0 libusb-0.1-4 libwind0-heimdal perl perl-base perl-modules 17 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 11.1 MB of archives. After this operation, 103 kB of additional disk space will be used. WARNING: The following packages cannot be authenticated! grep perl perl-base perl-modules libdb5.1 libusb-0.1-4 libsqlite3-0 libpng12-0 libroken18-heimdal libasn1-8-heimdal libhcrypto4-heimdal libheimbase1-heimdal libwind0-heimdal libhx509-5-heimdal libkrb5-26-heimdal libheimntlm0-heimdal libgssapi3-heimdal Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ quantal/main grep i386 2.12-2 [271 kB] Get:2 http://ftpmaster.internal/ubuntu/ quantal/main perl i386 5.14.2-10 [3706 kB] Get:3 http://ftpmaster.internal/ubuntu/ quantal/main perl-base i386 5.14.2-10 [1488 kB] Get:4 http://ftpmaster.internal/ubuntu/ quantal/main perl-modules all 5.14.2-10 [3392 kB] Get:5 http://ftpmaster.internal/ubuntu/ quantal/main libdb5.1 i386 5.1.29-4 [737 kB] Get:6 http://ftpmaster.internal/ubuntu/ quantal/main libusb-0.1-4 i386 2:0.1.12-21 [17.3 kB] Get:7 http://ftpmaster.internal/ubuntu/ quantal/main libsqlite3-0 i386 3.7.12.1-1 [372 kB] Get:8 http://ftpmaster.internal/ubuntu/ quantal/main libpng12-0 i386 1.2.49-1ubuntu1 [132 kB] Get:9 http://ftpmaster.internal/ubuntu/ quantal/main libroken18-heimdal i386 1.6~git20120403+dfsg1-1 [47.7 kB] Get:10 http://ftpmaster.internal/ubuntu/ quantal/main libasn1-8-heimdal i386 1.6~git20120403+dfsg1-1 [244 kB] Get:11 http://ftpmaster.internal/ubuntu/ quantal/main libhcrypto4-heimdal i386 1.6~git20120403+dfsg1-1 [104 kB] Get:12 http://ftpmaster.internal/ubuntu/ quantal/main libheimbase1-heimdal i386 1.6~git20120403+dfsg1-1 [33.7 kB] Get:13 http://ftpmaster.internal/ubuntu/ quantal/main libwind0-heimdal i386 1.6~git20120403+dfsg1-1 [77.6 kB] Get:14 http://ftpmaster.internal/ubuntu/ quantal/main libhx509-5-heimdal i386 1.6~git20120403+dfsg1-1 [127 kB] Get:15 http://ftpmaster.internal/ubuntu/ quantal/main libkrb5-26-heimdal i386 1.6~git20120403+dfsg1-1 [241 kB] Get:16 http://ftpmaster.internal/ubuntu/ quantal/main libheimntlm0-heimdal i386 1.6~git20120403+dfsg1-1 [16.7 kB] Get:17 http://ftpmaster.internal/ubuntu/ quantal/main libgssapi3-heimdal i386 1.6~git20120403+dfsg1-1 [112 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 11.1 MB in 1s (10.8 MB/s) (Reading database ... 12317 files and directories currently installed.) Preparing to replace grep 2.11-3 (using .../archives/grep_2.12-2_i386.deb) ... Unpacking replacement grep ... Setting up grep (2.12-2) ... (Reading database ... 12317 files and directories currently installed.) Preparing to replace perl 5.14.2-9 (using .../perl_5.14.2-10_i386.deb) ... Unpacking replacement perl ... Preparing to replace perl-base 5.14.2-9 (using .../perl-base_5.14.2-10_i386.deb) ... Unpacking replacement perl-base ... Setting up perl-base (5.14.2-10) ... (Reading database ... 12320 files and directories currently installed.) Preparing to replace perl-modules 5.14.2-9 (using .../perl-modules_5.14.2-10_all.deb) ... Unpacking replacement perl-modules ... Preparing to replace libdb5.1 5.1.29-1build1 (using .../libdb5.1_5.1.29-4_i386.deb) ... Unpacking replacement libdb5.1 ... Setting up libdb5.1 (5.1.29-4) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12320 files and directories currently installed.) Preparing to replace libusb-0.1-4 2:0.1.12-20 (using .../libusb-0.1-4_2%3a0.1.12-21_i386.deb) ... Unpacking replacement libusb-0.1-4 ... Setting up libusb-0.1-4 (2:0.1.12-21) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12320 files and directories currently installed.) Preparing to replace libsqlite3-0 3.7.11-3 (using .../libsqlite3-0_3.7.12.1-1_i386.deb) ... Unpacking replacement libsqlite3-0 ... Preparing to replace libpng12-0 1.2.46-3ubuntu4 (using .../libpng12-0_1.2.49-1ubuntu1_i386.deb) ... Unpacking replacement libpng12-0 ... Preparing to replace libroken18-heimdal 1.6~git20120311.dfsg.1-2 (using .../libroken18-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libroken18-heimdal ... Preparing to replace libasn1-8-heimdal 1.6~git20120311.dfsg.1-2 (using .../libasn1-8-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libasn1-8-heimdal ... Preparing to replace libhcrypto4-heimdal 1.6~git20120311.dfsg.1-2 (using .../libhcrypto4-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libhcrypto4-heimdal ... Preparing to replace libheimbase1-heimdal 1.6~git20120311.dfsg.1-2 (using .../libheimbase1-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libheimbase1-heimdal ... Preparing to replace libwind0-heimdal 1.6~git20120311.dfsg.1-2 (using .../libwind0-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libwind0-heimdal ... Preparing to replace libhx509-5-heimdal 1.6~git20120311.dfsg.1-2 (using .../libhx509-5-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libhx509-5-heimdal ... Preparing to replace libkrb5-26-heimdal 1.6~git20120311.dfsg.1-2 (using .../libkrb5-26-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libkrb5-26-heimdal ... Preparing to replace libheimntlm0-heimdal 1.6~git20120311.dfsg.1-2 (using .../libheimntlm0-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libheimntlm0-heimdal ... Preparing to replace libgssapi3-heimdal 1.6~git20120311.dfsg.1-2 (using .../libgssapi3-heimdal_1.6~git20120403+dfsg1-1_i386.deb) ... Unpacking replacement libgssapi3-heimdal ... Setting up libsqlite3-0 (3.7.12.1-1) ... Setting up libpng12-0 (1.2.49-1ubuntu1) ... Setting up libroken18-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libasn1-8-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libhcrypto4-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libheimbase1-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libwind0-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libhx509-5-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libkrb5-26-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libheimntlm0-heimdal (1.6~git20120403+dfsg1-1) ... Setting up libgssapi3-heimdal (1.6~git20120403+dfsg1-1) ... Setting up perl-modules (5.14.2-10) ... Setting up perl (5.14.2-10) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '8ed1a2829186ed195cb32a72d9b3ac646af52291', 'i386', 'quantal', '--nolog', '--batch', '--archive=ubuntu', '--dist=quantal', '-A', '--purpose=PRIMARY', '--architecture=i386', '--comp=multiverse', 'paml_4.5-1.dsc'] Initiating build 8ed1a2829186ed195cb32a72d9b3ac646af52291 with 2 jobs across 2 processor cores. Automatic build of paml_4.5-1 on vernadsky by sbuild/i386 1.170.5 Build started at 20120525-0927 ****************************************************************************** paml_4.5-1.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 9) Checking for already installed source dependencies... debhelper: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils dh-apparmor file gettext gettext-base groff-base html2text intltool-debian libcroco3 libgettextpo0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils debhelper dh-apparmor file gettext gettext-base groff-base html2text intltool-debian libcroco3 libgettextpo0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf 0 upgraded, 17 newly installed, 0 to remove and 0 not upgraded. Need to get 5709 kB of archives. After this operation, 17.7 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libmagic1 libpipeline1 libxml2 libcroco3 libunistring0 libgettextpo0 file bsdmainutils gettext-base groff-base man-db html2text gettext intltool-debian po-debconf dh-apparmor debhelper Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ quantal/main libmagic1 i386 5.11-1 [219 kB] Get:2 http://ftpmaster.internal/ubuntu/ quantal/main libpipeline1 i386 1.2.1-1 [26.1 kB] Get:3 http://ftpmaster.internal/ubuntu/ quantal/main libxml2 i386 2.7.8.dfsg-5.1ubuntu5 [661 kB] Get:4 http://ftpmaster.internal/ubuntu/ quantal/main libcroco3 i386 0.6.5-1 [99.7 kB] Get:5 http://ftpmaster.internal/ubuntu/ quantal/main libunistring0 i386 0.9.3-5 [432 kB] Get:6 http://ftpmaster.internal/ubuntu/ quantal/main libgettextpo0 i386 0.18.1.1-5ubuntu4 [121 kB] Get:7 http://ftpmaster.internal/ubuntu/ quantal/main file i386 5.11-1 [19.6 kB] Get:8 http://ftpmaster.internal/ubuntu/ quantal/main bsdmainutils i386 9.0.2ubuntu1 [198 kB] Get:9 http://ftpmaster.internal/ubuntu/ quantal/main gettext-base i386 0.18.1.1-5ubuntu4 [58.1 kB] Get:10 http://ftpmaster.internal/ubuntu/ quantal/main groff-base i386 1.21-7 [1024 kB] Get:11 http://ftpmaster.internal/ubuntu/ quantal/main man-db i386 2.6.1-2 [747 kB] Get:12 http://ftpmaster.internal/ubuntu/ quantal/main html2text i386 1.3.2a-15 [101 kB] Get:13 http://ftpmaster.internal/ubuntu/ quantal/main gettext i386 0.18.1.1-5ubuntu4 [1145 kB] Get:14 http://ftpmaster.internal/ubuntu/ quantal/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:15 http://ftpmaster.internal/ubuntu/ quantal/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:16 http://ftpmaster.internal/ubuntu/ quantal/main dh-apparmor all 2.7.102-0ubuntu4 [9548 B] Get:17 http://ftpmaster.internal/ubuntu/ quantal/main debhelper all 9.20120419ubuntu2 [609 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 5709 kB in 0s (10.6 MB/s) Selecting previously unselected package libmagic1. (Reading database ... 12320 files and directories currently installed.) Unpacking libmagic1 (from .../libmagic1_5.11-1_i386.deb) ... Selecting previously unselected package libpipeline1. Unpacking libpipeline1 (from .../libpipeline1_1.2.1-1_i386.deb) ... Selecting previously unselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5.1ubuntu5_i386.deb) ... Selecting previously unselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.5-1_i386.deb) ... Selecting previously unselected package libunistring0. Unpacking libunistring0 (from .../libunistring0_0.9.3-5_i386.deb) ... Selecting previously unselected package libgettextpo0. Unpacking libgettextpo0 (from .../libgettextpo0_0.18.1.1-5ubuntu4_i386.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.11-1_i386.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.2ubuntu1_i386.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5ubuntu4_i386.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-7_i386.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.1-2_i386.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_i386.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-5ubuntu4_i386.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2ubuntu1_all.deb) ... Selecting previously unselected package dh-apparmor. Unpacking dh-apparmor (from .../dh-apparmor_2.7.102-0ubuntu4_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120419ubuntu2_all.deb) ... Setting up libmagic1 (5.11-1) ... Setting up libpipeline1 (1.2.1-1) ... Setting up libxml2 (2.7.8.dfsg-5.1ubuntu5) ... Setting up libcroco3 (0.6.5-1) ... Setting up libunistring0 (0.9.3-5) ... Setting up libgettextpo0 (0.18.1.1-5ubuntu4) ... Setting up file (5.11-1) ... Setting up bsdmainutils (9.0.2ubuntu1) ... 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 gettext-base (0.18.1.1-5ubuntu4) ... Setting up groff-base (1.21-7) ... Setting up man-db (2.6.1-2) ... Building database of manual pages ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5ubuntu4) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-apparmor (2.7.102-0ubuntu4) ... Setting up debhelper (9.20120419ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.15-0ubuntu12 make_3.81-8.1ubuntu1 dpkg-dev_1.16.1.2ubuntu8 gcc-4.7_4.7.0-7ubuntu4 g++-4.7_4.7.0-7ubuntu4 binutils_2.22-6ubuntu1 libstdc++6-4.7-dev_4.7.0-7ubuntu4 libstdc++6_4.7.0-7ubuntu4 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt gpgv: Signature made Tue May 22 12:25:04 2012 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./paml_4.5-1.dsc dpkg-source: info: extracting paml in paml-4.5 dpkg-source: info: unpacking paml_4.5.orig.tar.gz dpkg-source: info: unpacking paml_4.5-1.debian.tar.gz dpkg-source: info: applying makefile.patch dpkg-source: info: applying hardening.patch dpkg-buildpackage: source package paml dpkg-buildpackage: source version 4.5-1 dpkg-source --before-build paml-4.5 dpkg-buildpackage: host architecture i386 /usr/bin/fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean make[1]: Entering directory `/build/buildd/paml-4.5' echo "Cleaning binaries" Cleaning binaries rm -f make[1]: Leaving directory `/build/buildd/paml-4.5' dh_clean debian/rules build dh build dh_testdir dh_auto_configure dh_auto_build make[1]: Entering directory `/build/buildd/paml-4.5' echo "Executing make all in src directory, instead." Executing make all in src directory, instead. make -C src all make[2]: Entering directory `/build/buildd/paml-4.5/src' cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o baseml baseml.c tools.c -lm In file included from baseml.c:129:0: treesub.c: In function 'ReadSeq': treesub.c:438:10: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c:438:10: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c:446:7: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c:446:7: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c: In function 'printPatterns': treesub.c:590:7: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c:590:7: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c: In function 'AllPatterns': treesub.c:811:7: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c:811:7: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from baseml.c:11:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from baseml.c:129:0: treesub.c: In function 'PruneSubTreeN': treesub.c:2793:1: warning: zero-length gnu_printf format string [-Wformat-zero-length] treesub.c: In function 'StepwiseAdditionMP': treesub.c:3724:6: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'unsigned int' [-Wformat] treesub.c: In function 'rell': treesub.c:4790:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c: In function 'AncestralJointPPSG2000': treesub.c:5873:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c:5881:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c: In function 'minB': treesub.c:6732:10: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c:6732:10: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' [-Wformat] In file included from baseml.c:129:0: treesub.c: In function 'GetMemBC': treesub.c:8134:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] baseml.c: In function 'main': baseml.c:269:10: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'unsigned int' [-Wformat] baseml.c:270:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] baseml.c:271:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] baseml.c:271:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' [-Wformat] baseml.c: In function 'GetInitials': baseml.c:992:10: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] In file included from baseml.c:129:0: baseml.c: In function 'DatingHeteroData': treesub.c:8842:15: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'AdHocRateSmoothing': treesub.c:8540:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:8632:37: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:8723:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'ReadTreeSeqs': treesub.c:7644:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] In file included from baseml.c:129:0: baseml.c: In function 'rell': treesub.c:4784:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:4808:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:4812:17: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:4815:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'StarDecomposition': treesub.c:3935:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'Perturbation': treesub.c:3642:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'readx': treesub.c:3448:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'ReadTreeN': treesub.c:2530:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2563:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2564:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2566:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2623:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'ReadTreeB': treesub.c:2273:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2288:21: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] baseml.c: In function 'ReadSeq': treesub.c:251:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] treesub.c:284:40: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:500:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o codeml codeml.c tools.c -lm In file included from codeml.c:214:0: treesub.c: In function 'ReadSeq': treesub.c:438:10: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:438:10: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:446:7: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:446:7: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:467:10: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:467:10: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c: In function 'printPatterns': treesub.c:586:7: warning: passing argument 2 of 'printsmaCodon' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:127:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:590:7: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:590:7: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c: In function 'AllPatterns': treesub.c:807:7: warning: passing argument 2 of 'printsmaCodon' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:127:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:811:7: warning: passing argument 2 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c:811:7: warning: passing argument 3 of 'printsma' from incompatible pointer type [enabled by default] In file included from codeml.c:19:0: paml.h:124:5: note: expected 'char **' but argument is of type 'unsigned char **' In file included from codeml.c:214:0: treesub.c: In function 'PruneSubTreeN': treesub.c:2793:1: warning: zero-length gnu_printf format string [-Wformat-zero-length] treesub.c: In function 'StepwiseAdditionMP': treesub.c:3724:6: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'unsigned int' [-Wformat] treesub.c: In function 'rell': treesub.c:4790:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c: In function 'AncestralJointPPSG2000': treesub.c:5873:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c:5881:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c: In function 'minB': treesub.c:6732:10: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] treesub.c:6732:10: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' [-Wformat] In file included from codeml.c:214:0: treesub.c: In function 'GetMemBC': treesub.c:8134:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] codeml.c: In function 'main': codeml.c:431:10: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] codeml.c: In function 'GetInitials': codeml.c:2205:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] codeml.c: In function 'PairwiseAArev': codeml.c:4546:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' [-Wformat] codeml.c: In function 'lfunNSsites_rate': codeml.c:4877:15: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c:4890:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'PairwiseCodon': codeml.c:4243:18: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'GetOmegaAA': codeml.c:3963:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c:3980:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c:3984:16: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'GetDaa': codeml.c:3839:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] In file included from codeml.c:214:0: codeml.c: In function 'DatingHeteroData': treesub.c:8842:15: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'AdHocRateSmoothing': treesub.c:8540:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:8632:37: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:8723:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'ReadTreeSeqs': treesub.c:7644:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] In file included from codeml.c:214:0: codeml.c: In function 'rell': treesub.c:4784:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:4808:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:4812:17: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:4815:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'StarDecomposition': treesub.c:3935:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'Perturbation': treesub.c:3642:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'readx': treesub.c:3448:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'ReadTreeN': treesub.c:2530:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2563:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2564:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2566:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2623:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'ReadTreeB': treesub.c:2273:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2288:21: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] codeml.c: In function 'ReadSeq': treesub.c:251:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] treesub.c:284:40: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:500:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o basemlg basemlg.c tools.c -lm In file included from basemlg.c:80:0: treesub.c: In function 'PruneSubTreeN': treesub.c:2793:1: warning: zero-length gnu_printf format string [-Wformat-zero-length] basemlg.c: In function 'readx': treesub.c:3448:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] basemlg.c: In function 'ReadTreeN': treesub.c:2530:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2563:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2564:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2566:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2623:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] basemlg.c: In function 'ReadTreeB': treesub.c:2273:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2288:21: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] basemlg.c: In function 'ReadSeq': treesub.c:251:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] treesub.c:284:40: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:500:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o mcmctree mcmctree.c tools.c -lm In file included from mcmctree.c:178:0: treesub.c: In function 'PruneSubTreeN': treesub.c:2793:1: warning: zero-length gnu_printf format string [-Wformat-zero-length] mcmctree.c: In function 'DescriptiveStatisticsSimpleMCMCTREE': mcmctree.c:3198:30: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:3206:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:3209:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c: In function 'Infinitesites': mcmctree.c:1221:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:1223:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:1232:38: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c: In function 'GenerateBlengthGH': mcmctree.c:906:13: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c: In function 'ReadBlengthGH': mcmctree.c:723:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:744:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:746:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c:748:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] In file included from mcmctree.c:178:0: mcmctree.c: In function 'ReadTreeSeqs': treesub.c:7644:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] In file included from mcmctree.c:178:0: mcmctree.c: In function 'ReadTreeN': treesub.c:2530:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2563:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2564:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2566:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2623:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c: In function 'ReadTreeB': treesub.c:2273:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2288:21: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] mcmctree.c: In function 'ReadSeq': treesub.c:251:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] treesub.c:284:40: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:500:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o pamp pamp.c tools.c -lm In file included from pamp.c:65:0: treesub.c: In function 'PruneSubTreeN': treesub.c:2793:1: warning: zero-length gnu_printf format string [-Wformat-zero-length] pamp.c: In function 'main': pamp.c:114:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] In file included from pamp.c:65:0: pamp.c: In function 'ReadTreeN': treesub.c:2530:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2563:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2564:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2566:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2623:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] pamp.c: In function 'ReadTreeB': treesub.c:2273:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2288:21: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] pamp.c: In function 'ReadSeq': treesub.c:251:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] treesub.c:284:40: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:500:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o evolver evolver.c tools.c -lm In file included from evolver.c:62:0: treesub.c: In function 'PruneSubTreeN': treesub.c:2793:1: warning: zero-length gnu_printf format string [-Wformat-zero-length] evolver.c: In function 'CladeProbabilities': evolver.c:1390:13: warning: embedded '\0' in format [-Wformat-contains-nul] evolver.c: In function 'Rell2MLtree': evolver.c:1501:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1502:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1504:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'CladeSupport': evolver.c:1423:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1428:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1445:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1464:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'CladeProbabilities': evolver.c:1358:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'Simulate': evolver.c:908:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:908:38: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:913:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:914:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:916:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:917:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:929:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:929:42: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:953:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:954:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:959:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:960:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:967:26: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:968:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:981:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:981:46: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:983:33: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:983:66: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:984:33: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:984:66: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:990:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:990:46: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:992:33: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:992:66: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1021:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1022:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1028:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1028:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1033:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1034:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1051:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1053:33: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1054:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c:1060:33: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'GetDaa': evolver.c:627:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'TreeDistances': evolver.c:435:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:438:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:447:9: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'TreeDistanceDistribution': evolver.c:381:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:384:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'LabelClades': evolver.c:259:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:261:10: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:264:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:281:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'between_f_and_x': evolver.c:233:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:235:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:237:23: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'main': evolver.c:156:15: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:162:19: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:169:18: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:172:19: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] evolver.c:188:22: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] In file included from evolver.c:62:0: evolver.c: In function 'ReadTreeN': treesub.c:2530:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2563:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2564:55: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2566:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2623:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] evolver.c: In function 'ReadTreeB': treesub.c:2273:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:2288:21: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o yn00 yn00.c tools.c -lm In file included from yn00.c:69:0: yn00.c: In function 'ReadSeq': treesub.c:251:15: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] treesub.c:284:40: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] treesub.c:500:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'rndu': tools.c:1298:4: warning: this decimal constant is unsigned only in ISO C90 [enabled by default] tools.c: In function 'DescriptiveStatisticsSimple': tools.c:5432:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5455:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5458:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'DescriptiveStatistics': tools.c:5238:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5247:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5263:24: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5266:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5282:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5285:35: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5347:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5351:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c:5384:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c:5388:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'scanfile': tools.c:4971:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'gfopen': tools.c:1106:12: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] tools.c: In function 'ScanFastaFile': tools.c:953:16: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] cc -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -O4 -funroll-loops -fomit-frame-pointer -finline-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -o chi2 chi2.c -lm chi2.c: In function 'main': chi2.c:64:10: warning: format '%d' expects a matching 'int' argument [-Wformat] chi2.c:64:10: warning: format '%f' expects a matching 'double' argument [-Wformat] chi2.c:54:16: warning: ignoring return value of 'scanf', declared with attribute warn_unused_result [-Wunused-result] make[2]: Leaving directory `/build/buildd/paml-4.5/src' make[1]: Leaving directory `/build/buildd/paml-4.5' dh_auto_test /usr/bin/fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_installdirs dh_auto_install make[1]: Entering directory `/build/buildd/paml-4.5' echo "Executing make install in src directory, instead." Executing make install in src directory, instead. make -C src install make[2]: Entering directory `/build/buildd/paml-4.5/src' if [ ! -d "/build/buildd/paml-4.5/debian/tmp//usr/bin" ]; then mkdir -p "/build/buildd/paml-4.5/debian/tmp//usr/bin"; fi cp baseml codeml basemlg mcmctree pamp evolver yn00 chi2 /build/buildd/paml-4.5/debian/tmp//usr/bin/ make[2]: Leaving directory `/build/buildd/paml-4.5/src' make[1]: Leaving directory `/build/buildd/paml-4.5' dh_install dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory `/build/buildd/paml-4.5' dh_installexamples for d in `find debian -name examples -a -type d`; do \ find $d \! -type d | xargs -r chmod -x ; \ done make[1]: Leaving directory `/build/buildd/paml-4.5' dh_installman dh_installcatalogs dh_installcron dh_installdebconf dh_installemacsen dh_installifupdown dh_installinfo dh_installinit dh_installmenu dh_installmime dh_installmodules dh_installlogcheck dh_installlogrotate dh_installpam dh_installppp dh_installudev dh_installwm dh_installxfonts dh_installgsettings dh_bugfiles dh_ucf dh_lintian dh_gconf dh_icons dh_perl dh_usrlocal dh_link dh_compress dh_fixperms dh_strip dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: paml dh_strip debug symbol extraction: packages to act on: paml dh_strip debug symbol extraction: ignored packages: dpkg-deb: building package `paml-dbgsym' in `../paml-dbgsym_4.5-1_i386.ddeb'. dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums debian/rules override_dh_builddeb make[1]: Entering directory `/build/buildd/paml-4.5' dh_builddeb -- -Z xz INFO: pkgstriptranslations version 116 pkgstriptranslations: processing paml (in debian/paml); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/paml/DEBIAN/control, package paml, directory debian/paml pkgstripfiles: PNG optimization for package paml took 0 s dpkg-deb: warning: 'debian/paml/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `paml' in `../paml_4.5-1_i386.deb'. INFO: pkgstriptranslations version 116 pkgstriptranslations: processing paml-doc (in debian/paml-doc); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/paml-doc/DEBIAN/control, package paml-doc, directory debian/paml-doc pkgstripfiles: Disabled PNG optimization for -doc package paml-doc (to save build time) dpkg-deb: warning: 'debian/paml-doc/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `paml-doc' in `../paml-doc_4.5-1_all.deb'. make[1]: Leaving directory `/build/buildd/paml-4.5' dpkg-genchanges -b -mUbuntu/i386 Build Daemon >../paml_4.5-1_i386.changes dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build paml-4.5 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20120525-0933 Publishing debug debs. chroot-autobuild/build/buildd/paml_4.5-1_i386.deb: new debian package, version 2.0. size 615100 bytes: control archive= 935 bytes. 533 bytes, 13 lines control 851 bytes, 13 lines md5sums Package: paml Version: 4.5-1 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3297 Depends: libc6 (>= 2.7) Section: non-free/science Priority: extra Homepage: http://abacus.gene.ucl.ac.uk/software/paml.html Description: Phylogenetic Analysis by Maximum Likelihood (PAML) PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. chroot-autobuild/build/buildd/paml-doc_4.5-1_all.deb: new debian package, version 2.0. size 1381788 bytes: control archive= 3480 bytes. 498 bytes, 13 lines control 9248 bytes, 102 lines md5sums Package: paml-doc Source: paml Version: 4.5-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1501 Section: non-free/doc Priority: extra Homepage: http://abacus.gene.ucl.ac.uk/software/paml.html Description: Documentation for PAML The source code comes with a series of PDF files to help with further insights for the working of, and with, PAML. chroot-autobuild/build/buildd/paml_4.5-1_i386.deb: dpkg-deb: file `chroot-autobuild/build/buildd/paml_4.5-1_i386.deb' contains ununderstood data member data.tar.xz , giving up chroot-autobuild/build/buildd/paml-doc_4.5-1_all.deb: dpkg-deb: file `chroot-autobuild/build/buildd/paml-doc_4.5-1_all.deb' contains ununderstood data member data.tar.xz , giving up paml_4.5-1_i386.changes: Format: 1.8 Date: Tue, 15 May 2012 11:10:59 +0200 Source: paml Binary: paml paml-doc Architecture: i386 all Version: 4.5-1 Distribution: quantal Urgency: low Maintainer: Ubuntu/i386 Build Daemon Changed-By: Andreas Tille Description: paml - Phylogenetic Analysis by Maximum Likelihood (PAML) paml-doc - Documentation for PAML Closes: 661519 Changes: paml (4.5-1) unstable; urgency=low . [ Pjotr Prins ] * Improved long description. . [ Andreas Tille ] * New upstream version * Fixed watch file * debian/control: Standards-Version: 3.9.3 (no changes needed) * debian/rules: remove useless dh-make template * debian/paml.dirs: removed because unneeded * debian/{install,links}: install all binaries to /usr/lib/debian-med/bin and symlink to /usr/bin with the exception of evolver which has a name space conflict. This is renamed to /usr/bin/paml-evolver Closes: #661519 * debian/{paml.docs,paml-doc.docs}: - Adapted to new names - do not duplicate the same files into both packages (paml and paml-doc) * debian/profile.d/paml: Set PATH to find paml executables under their expected names * debian/README.Debian: Document the name space conflict solution * debian/upstream: Citation information * debhelper 9 (control+compat) * debian/patches/hardening.patch: Enable propagation of hardening flags Checksums-Sha1: 10942283d95a73d24e75511564705d34fc02e011 615100 paml_4.5-1_i386.deb 227dc15ed68f02a63768366b0015fb99c960474e 1381788 paml-doc_4.5-1_all.deb Checksums-Sha256: d8c053c301678ff48cd0ba3085b32af08bceeaa95daf2a8ee1706110708b5e04 615100 paml_4.5-1_i386.deb 82ba92ac3bb062b936b34197d729b72dfae3343055ca717e6e7eb10aa9c156d5 1381788 paml-doc_4.5-1_all.deb Files: cfc6604203b0c87576ddb9861f2a3ca8 615100 non-free/science extra paml_4.5-1_i386.deb cf263b7502ee716f4e082e3554556d4b 1381788 non-free/doc extra paml-doc_4.5-1_all.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20120525-0933 Build needed 00:05:21, 30916k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '8ed1a2829186ed195cb32a72d9b3ac646af52291'] Scanning for processes to kill in build /home/buildd/build-8ed1a2829186ed195cb32a72d9b3ac646af52291/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '8ed1a2829186ed195cb32a72d9b3ac646af52291'] Unmounting chroot for build 8ed1a2829186ed195cb32a72d9b3ac646af52291... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '8ed1a2829186ed195cb32a72d9b3ac646af52291'] Removing build 8ed1a2829186ed195cb32a72d9b3ac646af52291