[build-status: 76167] Log for successful build of probcons_1.12-3 (dist=unstable)
Build Daemon 4
buildd4 at linux-m32r.org
Tue Jun 5 23:39:57 JST 2007
Automatic build of probcons_1.12-3 on mappi006 by sbuild/m32r 0.53
Build started at 20070605-2237
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Checking available source versions...
Fetching source files...
Reading package lists...
Building dependency tree...
Need to get 51.6kB of source archives.
Get:1 http://debian.linux-m32r.org 06_devonian/main probcons 1.12-3 (dsc) [868B]
Get:2 http://debian.linux-m32r.org 06_devonian/main probcons 1.12-3 (tar) [43.2kB]
Get:3 http://debian.linux-m32r.org 06_devonian/main probcons 1.12-3 (diff) [7563B]
Fetched 51.6kB in 0s (55.9kB/s)
Download complete and in download only mode
** Using build dependencies supplied by package:
Build-Depends: debhelper (>= 5), xsltproc, docbook-xml, docbook-xsl, dpatch
Checking for already installed source dependencies...
debhelper: already installed (5.0.49 >= 5 is satisfied)
xsltproc: already installed (1.1.20-1)
docbook-xml: already installed (4.5-4)
docbook-xsl: already installed (1.72.0.dfsg.1-1)
dpatch: already installed (2.0.25)
Checking for source dependency conflicts...
Checking correctness of source dependencies...
Kernel: Linux 2.6.20 m32r (m32r)
Toolchain package versions: libc6-dev_2.3.6.ds1-13 linux-kernel-headers_2.6.18-7.0.1 gcc-4.1_4.1.1-21 g++-4.1_4.1.1-21 binutils_2.17-3 libstdc++6-4.1-dev_4.1.1-21 libstdc++6_4.1.1-21
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gpg: Signature made Wed May 30 19:08:41 2007 JST using DSA key ID 73CDA455
gpg: Can't check signature: public key not found
dpkg-source: extracting probcons in probcons-1.12
dpkg-source: unpacking probcons_1.12.orig.tar.gz
dpkg-source: applying /debian/buildd4/build/probcons_1.12-3.diff.gz
dpkg-buildpackage: source package is probcons
dpkg-buildpackage: source version is 1.12-3
dpkg-buildpackage: source changed by Charles Plessy <charles-debian-nospam at plessy.org>
dpkg-buildpackage: host architecture m32r
dpkg-buildpackage: source version without epoch 1.12-3
/usr/bin/fakeroot debian/rules clean
dpatch deapply-all
11-Rename-programs-in-Makefile not applied to ./ .
10_add-RNA-in-Makefile not applied to ./ .
rm -rf patch-stamp patch-stampT debian/patched
dh_testdir
dh_testroot
rm -f build-stamp manpages-stamp
dh_clean probcons probcons-RNA pc-project pc-compare pc-makegnuplot probcons.1 probcons-RNA.1 pc-compare.1 pc-project.1 pc-makegnuplot.1 Main-RNA.cc Defaults-RNA.h
debian/rules build
test -d debian/patched || install -d debian/patched
dpatch apply-all
applying patch 10_add-RNA-in-Makefile to ./ ... ok.
applying patch 11-Rename-programs-in-Makefile to ./ ... ok.
dpatch cat-all >>patch-stampT
mv -f patch-stampT patch-stamp
dh_testdir
cp Main.cc Main-RNA.cc
cp debian/Defaults-RNA.h Defaults-RNA.h
/usr/bin/make
make[1]: Entering directory `/build/buildd4/probcons-1.12'
g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -lm -o probcons Main.cc
g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=1 -DVERSION="1.12" -funroll-loops -lm -o probcons-RNA Main-RNA.cc
g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -o pc-compare CompareToRef.cc
g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -o pc-project ProjectPairwise.cc
g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -o pc-makegnuplot MakeGnuPlot.cc
make[1]: Leaving directory `/build/buildd4/probcons-1.12'
touch build-stamp
xsltproc -''-nonet -''-param man.charmap.use.subset "0" -''-param make.year.ranges "1" -''-param make.single.year.ranges "1" debian/probcons.1.xml
Note: meta version: No productnumber probcons
Note: meta version: No refmiscinfo at class=version probcons
Note: meta version: Using releaseinfo probcons
Note: Writing probcons.1
xsltproc -''-nonet -''-param man.charmap.use.subset "0" -''-param make.year.ranges "1" -''-param make.single.year.ranges "1" debian/probcons-RNA.1.xml
Note: meta version: No productnumber probcons-RNA
Note: meta version: No refmiscinfo at class=version probcons-RNA
Note: meta version: Using releaseinfo probcons-RNA
Note: Writing probcons-RNA.1
xsltproc -''-nonet -''-param man.charmap.use.subset "0" -''-param make.year.ranges "1" -''-param make.single.year.ranges "1" debian/pc-project.1.xml
Note: meta version: No productnumber pc-project
Note: meta version: No refmiscinfo at class=version pc-project
Note: meta version: Using releaseinfo pc-project
Note: Writing pc-project.1
xsltproc -''-nonet -''-param man.charmap.use.subset "0" -''-param make.year.ranges "1" -''-param make.single.year.ranges "1" debian/pc-compare.1.xml
Note: meta version: No productnumber pc-compare
Note: meta version: No refmiscinfo at class=version pc-compare
Note: meta version: Using releaseinfo pc-compare
Note: Writing pc-compare.1
xsltproc -''-nonet -''-param man.charmap.use.subset "0" -''-param make.year.ranges "1" -''-param make.single.year.ranges "1" debian/pc-makegnuplot.1.xml
Note: meta version: No productnumber pc-makegnuplot
Note: meta version: No refmiscinfo at class=version pc-makegnuplot
Note: meta version: Using releaseinfo pc-makegnuplot
Note: Writing pc-makegnuplot.1
touch manpages-stamp
/usr/bin/fakeroot debian/rules binary-arch
dh_testdir
dh_testroot
dh_clean -k
dh_installdirs
ln -s probcons debian/probcons-extra/usr/share/doc/probcons-extra
dh_testdir
dh_testroot
dh_installchangelogs
dh_installdocs
dh_installexamples
dh_install
dh_installman
dh_link
dh_strip
dh_compress
dh_fixperms
dh_installdeb
dh_shlibdeps
dh_gencontrol
dpkg-gencontrol: warning: unknown substitution variable ${misc:Depends}
dpkg-gencontrol: warning: unknown substitution variable ${misc:Depends}
dh_md5sums
dh_builddeb
dpkg-deb: building package `probcons' in `../probcons_1.12-3_m32r.deb'.
dpkg-deb: building package `probcons-extra' in `../probcons-extra_1.12-3_m32r.deb'.
dpkg-genchanges -B
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 20070605-2339
probcons_1.12-3_m32r.changes:
Format: 1.7
Date: Wed, 16 May 2007 09:35:25 +0900
Source: probcons
Binary: probcons-extra probcons
Architecture: m32r
Version: 1.12-3
Distribution: unstable
Urgency: low
Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Changed-By: Charles Plessy <charles-debian-nospam at plessy.org>
Description:
probcons - PROBabilistic CONSistency-based multiple sequence alignment
probcons-extra - Extra programs from the probcons package
Closes: 424301
Changes:
probcons (1.12-3) unstable; urgency=low
.
* Fixed typos which caused incomplete cleaning (Closes: #424301).
* Fixed double-building of binaries and manpages.
Files:
b898a6dd239ae0352f814ae6e0157009 245862 science optional probcons_1.12-3_m32r.deb
9642f581e267c8f4cb655e600292bef1 58646 science extra probcons-extra_1.12-3_m32r.deb
/debian/buildd4/build/chroot-unstable/build/buildd4/probcons_1.12-3_m32r.deb:
new debian package, version 2.0.
size 245862 bytes: control archive= 1077 bytes.
1130 bytes, 22 lines control
526 bytes, 8 lines md5sums
Package: probcons
Version: 1.12-3
Architecture: m32r
Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Installed-Size: 472
Depends: libc6 (>= 2.3.5-1), libgcc1 (>= 1:4.1.1-12), libstdc++6 (>= 4.1.1-12)
Suggests: probcons-extra
Section: science
Priority: optional
Description: PROBabilistic CONSistency-based multiple sequence alignment
Tool for generating multiple alignments of protein sequences. Using a
combination of probabilistic modeling and consistency-based alignment
techniques, PROBCONS has achieved the highest accuracies of all alignment
methods to date. On the BAliBASE benchmark alignment database, alignments
produced by PROBCONS show statistically significant improvement over current
programs, containing an average of 7% more correctly aligned columns than
those of T-Coffee, 11% more correctly aligned columns than those of CLUSTAL W,
rm: cannot remove directory `/tmp/dpkgwLx8qf': Directory not empty
rm cleanup failed, code 256
and 14% more correctly aligned columns than those of DIALIGN. Probcons is
published in Do, C.B., Mahabhashyam, M.S.P., Brudno, M., and Batzoglou, S.
2005. Genome Research 15: 330-340.
.
Homepage: http://probcons.stanford.edu/
/debian/buildd4/build/chroot-unstable/build/buildd4/probcons-extra_1.12-3_m32r.deb:
new debian package, version 2.0.
size 58646 bytes: control archive= 852 bytes.
rm: cannot remove directory `/tmp/dpkghdptdo': Directory not empty
rm cleanup failed, code 256
853 bytes, 21 lines control
374 bytes, 6 lines md5sums
Package: probcons-extra
Source: probcons
Version: 1.12-3
Architecture: m32r
Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Installed-Size: 152
Depends: probcons (= 1.12-3), libc6 (>= 2.3.5-1), libgcc1 (>= 1:4.1.1-12), libstdc++6 (>= 4.1.1-12)
Suggests: gnuplot-nox | gnuplot-x11
Section: science
Priority: extra
Description: Extra programs from the probcons package
Contains the convert, project and makgnuplot programs from the probcons
package, which have been renamed to pc-compare, pc-project and pc-makegnuplot
respectively to avoid collisions with other program names. These programs are
mostly useful for testing purposes and are not required for the normal usage of
Probcons.
.
Probcons is a tool for generating multiple alignments of protein
sequences.
.
Homepage: http://probcons.stanford.edu/
/debian/buildd4/build/chroot-unstable/build/buildd4/probcons_1.12-3_m32r.deb:
drwxr-xr-x root/root 0 2007-06-05 23:37 ./
drwxr-xr-x root/root 0 2007-06-05 23:35 ./usr/
drwxr-xr-x root/root 0 2007-06-05 23:37 ./usr/bin/
-rwxr-xr-x root/root 213108 2007-06-05 23:37 ./usr/bin/probcons
-rwxr-xr-x root/root 194916 2007-06-05 23:37 ./usr/bin/probcons-RNA
drwxr-xr-x root/root 0 2007-06-05 23:36 ./usr/share/
drwxr-xr-x root/root 0 2007-06-05 23:35 ./usr/share/doc/
drwxr-xr-x root/root 0 2007-06-05 23:37 ./usr/share/doc/probcons/
-rw-r--r-- root/root 1771 2007-04-04 02:39 ./usr/share/doc/probcons/README.gz
-rw-r--r-- root/root 750 2007-06-05 22:39 ./usr/share/doc/probcons/README.Debian
-rw-r--r-- root/root 1027 2007-06-05 22:39 ./usr/share/doc/probcons/copyright
-rw-r--r-- root/root 616 2007-06-05 22:39 ./usr/share/doc/probcons/changelog.Debian.gz
drwxr-xr-x root/root 0 2007-06-05 23:36 ./usr/share/man/
drwxr-xr-x root/root 0 2007-06-05 23:37 ./usr/share/man/man1/
-rw-r--r-- root/root 1795 2007-06-05 23:25 ./usr/share/man/man1/probcons.1.gz
-rw-r--r-- root/root 875 2007-06-05 23:28 ./usr/share/man/man1/probcons-RNA.1.gz
/debian/buildd4/build/chroot-unstable/build/buildd4/probcons-extra_1.12-3_m32r.deb:
drwxr-xr-x root/root 0 2007-06-05 23:37 ./
drwxr-xr-x root/root 0 2007-06-05 23:35 ./usr/
drwxr-xr-x root/root 0 2007-06-05 23:37 ./usr/bin/
-rwxr-xr-x root/root 32248 2007-06-05 23:37 ./usr/bin/pc-project
-rwxr-xr-x root/root 8048 2007-06-05 23:37 ./usr/bin/pc-makegnuplot
-rwxr-xr-x root/root 62552 2007-06-05 23:37 ./usr/bin/pc-compare
drwxr-xr-x root/root 0 2007-06-05 23:36 ./usr/share/
drwxr-xr-x root/root 0 2007-06-05 23:37 ./usr/share/doc/
drwxr-xr-x root/root 0 2007-06-05 23:36 ./usr/share/man/
drwxr-xr-x root/root 0 2007-06-05 23:37 ./usr/share/man/man1/
-rw-r--r-- root/root 966 2007-06-05 23:33 ./usr/share/man/man1/pc-compare.1.gz
-rw-r--r-- root/root 881 2007-06-05 23:35 ./usr/share/man/man1/pc-makegnuplot.1.gz
-rw-r--r-- root/root 884 2007-06-05 23:30 ./usr/share/man/man1/pc-project.1.gz
lrwxrwxrwx root/root 0 2007-06-05 23:37 ./usr/share/doc/probcons-extra -> probcons
******************************************************************************
Built successfully
Purging /debian/buildd4/build/chroot-unstable/build/buildd4/probcons-1.12
------------------------------------------------------------------------------
******************************************************************************
Finished at 20070605-2339
Build needed 01:01:01, 2008k disk space
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