Automatic build of amap-align_2.2-1 on interix60 by sbuild/interix-i386 0.53 Build started at 20080627-0637 ****************************************************************************** Checking available source versions... Fetching source files... Reading package lists... Building dependency tree... Need to get 112kB of source archives. Get:1 http://ftp.de.debian.org unstable/main amap-align 2.2-1 (dsc) [982B] Get:2 http://ftp.de.debian.org unstable/main amap-align 2.2-1 (tar) [103kB] Get:3 http://ftp.de.debian.org unstable/main amap-align 2.2-1 (diff) [8407B] Fetched 112kB in 0s (234kB/s) Download complete and in download only mode ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 5), quilt Checking for already installed source dependencies... debhelper: already installed (5.0.61-0+interix.1 >= 5 is satisfied) quilt: already installed (0.46-6) Checking for source dependency conflicts... Checking correctness of source dependencies... Kernel: Interix 6.0 interix-i386 (x86) ------------------------------------------------------------------------------ sh: gcc: command not found dpkg-source: warning: Couldn't determine gcc system type, falling back to default (native compilation) gpg: Please note that you don't have secure memory on this system gpg: Signature made Thu Apr 10 12:01:58 2008 @tzres.dll using DSA key ID BAFEC7F2 gpg: Can't check signature: public key not found dpkg-source: extracting amap-align in amap-align-2.2 dpkg-source: unpacking amap-align_2.2.orig.tar.gz dpkg-source: applying /srv/wanna-build/buildd-home/build/amap-align_2.2-1.diff.gz dpkg-buildpackage: source package amap-align dpkg-buildpackage: source version 2.2-1 dpkg-buildpackage: host architecture interix-i386 /usr/local/bin/fakesudo debian/rules clean QUILT_PATCHES=debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 No patch removed rm -rf .pc debian/stamp-patched dh_testdir dh_testroot rm -f build-stamp [ ! -f align/Makefile ] || /usr/bin/make -C align clean make[1]: Entering directory `/build/interix60+Administrator/amap-align-2.2/align' rm -f amap make[1]: Leaving directory `/build/interix60+Administrator/amap-align-2.2/align' dh_clean debian/rules build # quilt exits with 2 as return when there was nothing to do. # That's not an error here (but it's useful to break loops in crude scripts) QUILT_PATCHES=debian/patches quilt --quiltrc /dev/null push -a || test $? = 2 /dev/null: line 1: tail:: command not found Applying patch fix-gcc-4.3.diff patching file align/Amap.cc patching file align/MultiSequenceDag.h Now at patch fix-gcc-4.3.diff touch debian/stamp-patched dh_testdir /usr/bin/make -C align make[1]: Entering directory `/build/interix60+Administrator/amap-align-2.2/align' g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=1 -DVERSION='"AMAP.2.2"' -funroll-loops -lm -o amap Amap.cc make[1]: Leaving directory `/build/interix60+Administrator/amap-align-2.2/align' touch build-stamp /usr/local/bin/fakesudo debian/rules binary-arch dh_testdir /usr/bin/make -C align make[1]: Entering directory `/build/interix60+Administrator/amap-align-2.2/align' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/build/interix60+Administrator/amap-align-2.2/align' touch build-stamp dh_testdir dh_testroot dh_clean -k dh_installdirs dh_testdir dh_testroot dh_installchangelogs dh_installdocs dh_installexamples dh_install align/amap debian/wrapper/amap-align usr/bin/ dh_installman debian/amap.1 dh_link usr/share/man/man1/amap.1 usr/share/man/man1/amap-align.1 dh_strip dh_compress dh_fixperms dh_installdeb dh_shlibdeps dpkg-shlibdeps: warning: Couldn't parse dynamic symbol definition: [199](sec 1)(fl 0x22)(ty 0)(scl 2) (nx 0) 0x00027780 __ZN9__gnu_cxx18stdio_sync_filebufIcSt11char_traitsIcEE8syncputcEi dpkg-shlibdeps: warning: Couldn't parse dynamic symbol definition: [548](sec 1)(fl 0x04)(ty 20)(scl 2) (nx 0) 0xfff96906 __wcs_pathconf dh_gencontrol dpkg-gencontrol: warning: unknown substitution variable ${misc:Depends} dh_md5sums dh_builddeb dpkg-deb: building package `amap-align' in `../amap-align_2.2-1_interix-i386.deb'. dpkg-genchanges -B -mMartin Koeppe >../amap-align_2.2-1_interix-i386.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20080627-0638 amap-align_2.2-1_interix-i386.changes: Format: 1.7 Date: Thu, 10 Apr 2008 09:17:01 +0900 Source: amap-align Binary: amap-align Architecture: interix-i386 Version: 2.2-1 Distribution: unstable Urgency: low Maintainer: Martin Koeppe Changed-By: Charles Plessy Description: amap-align - Protein multiple alignment by sequence annealing Closes: 468060 Changes: amap-align (2.2-1) unstable; urgency=low . [ Charles Plessy ] * New upstream release: - Corrected DNA alignment parameters file. Improved debug output. (2.01) - Includes new output for the AMAP Display Java based GUI. (2.1) * debian/amap.1, debian/amap.1.xml: updated the manpage. * debian/watch: changed URI to monitor. * debian/patches, debian/rules, debian/control: switched to quilt. * debian/patches/fix-gcc-4.3.diff: updated for version 2.2 (Closes: #468060). * debian/control: - Moved the 'Conflicts:' field from the source to the binary section. Files: 5f0ec97258f85294cd921b3a899668ae 134856 science optional amap-align_2.2-1_interix-i386.deb /srv/build/chroot-unstable/build/interix60+Administrator/amap-align_2.2-1_interix-i386.deb: new debian package, version 2.0. size 134856 bytes: control archive= zi bytes. 909 bytes, 20 lines control 693 bytes, 10 lines md5sums Package: amap-align Version: 2.2-1 Architecture: interix-i386 Maintainer: Debian-Med Packaging Team Installed-Size: 288 Depends: libm-newlib0, libstdc++6 (>= 4.2-20070516), ms-libc3.5 Conflicts: amap (<= 4.8-1) Section: science Priority: optional Homepage: http://bio.math.berkeley.edu/amap/ Description: Protein multiple alignment by sequence annealing AMAP is a command line tool to perform multiple alignment of peptidic sequences. It utilizes posterior decoding, and a sequence-annealing alignment, instead of the traditional progressive alignment method. It is the only alignment program that allows to control the sensitivity / specificity tradeoff. It is based on the ProbCons source code, but uses alignment metric accuracy and eliminates the consistency transformation. . The java visualisation tool of AMAP 2.2 is not yet packaged in Debian. /srv/build/chroot-unstable/build/interix60+Administrator/amap-align_2.2-1_interix-i386.deb: drwxr-xr-x 0/0 0 2008-06-27 06:38 ./ drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/ drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/bin/ -rwxr-xr-x 0/0 253952 2008-06-27 06:38 ./usr/bin/amap -rwxr-xr-x 0/0 175 2008-06-27 06:38 ./usr/bin/amap-align drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/share/ drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/share/doc/ drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/share/doc/amap-align/ -rw-r--r-- 0/0 1005 2008-06-27 06:38 ./usr/share/doc/amap-align/changelog.Debian.gz -rw-r--r-- 0/0 2499 2008-06-27 06:38 ./usr/share/doc/amap-align/copyright drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/share/doc/amap-align/examples/ -rwxr-xr-x 0/0 545 2008-06-27 06:38 ./usr/share/doc/amap-align/examples/BB12020.tfa -rw-r--r-- 0/0 21564 2008-06-27 06:38 ./usr/share/doc/amap-align/examples/BB12020.tfa.out.gz -rw-r--r-- 0/0 400 2008-06-27 06:38 ./usr/share/doc/amap-align/NEWS.Debian.gz -rw-r--r-- 0/0 3912 2008-06-27 06:38 ./usr/share/doc/amap-align/PROBCONS.README -rw-r--r-- 0/0 1049 2008-06-27 06:38 ./usr/share/doc/amap-align/README drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/share/man/ drwxr-xr-x 0/0 0 2008-06-27 06:38 ./usr/share/man/man1/ -rw-r--r-- 0/0 2904 2008-06-27 06:38 ./usr/share/man/man1/amap.1.gz lr--r--r-- 0/0 0 2008-06-27 06:38 ./usr/share/man/man1/amap-align.1.gz -> amap.1.gz ****************************************************************************** Built successfully Purging /srv/build/chroot-unstable/build/interix60+Administrator/amap-align-2.2 ------------------------------------------------------------------------------ ****************************************************************************** Finished at 20080627-0638 Build needed 00:01:12, 2213k disk space