[med-svn] [SCM] clustalw branch, meta, updated. efb8094fa9bcf7b2a2037aeee34905f532325061
Charles Plessy
plessy at debian.org
Sun Feb 27 07:19:13 UTC 2011
The following commit has been merged in the meta branch:
commit efb8094fa9bcf7b2a2037aeee34905f532325061
Author: Charles Plessy <plessy at debian.org>
Date: Sun Feb 27 16:18:22 2011 +0900
# Buildd logs for 2.1+lgpl-2.
Local build for 2.1+lgpl-2 still has to be collected.
diff --git a/alpha.log b/alpha.log
new file mode 100644
index 0000000..ebfa80e
--- /dev/null
+++ b/alpha.log
@@ -0,0 +1,678 @@
+From buildd at goedel.debian.org Sat Feb 12 04:36:20 2011
+Return-path: <buildd at goedel.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at goedel.debian.org>)
+ id 1Po7DY-0004SS-88
+ for logs at buildd.debian.org; Sat, 12 Feb 2011 04:36:20 +0000
+Received: from goedel.cst.com ([213.188.99.214] helo=goedel.debian.org)
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=goedel.debian.org, EMAIL=hostmaster at goedel.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at goedel.debian.org>)
+ id 1Po7DW-0005Wr-2g; Sat, 12 Feb 2011 04:36:18 +0000
+Received: from buildd by goedel.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at goedel.debian.org>)
+ id 1Po7DU-0005fx-8W; Sat, 12 Feb 2011 04:36:16 +0000
+From: buildd at goedel.debian.org
+To: kurt at roeckx.be,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on alpha (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Po7DU-0005fx-8W at goedel.debian.org>
+Date: Sat, 12 Feb 2011 04:36:16 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on goedel.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (alpha) 12 Feb 2011 04:29 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: alpha
+Chroot Build Dir: /var/lib/schroot/mount/sid-alpha-sbuild-29bcb7d3-aab3-4ee5-ace5-1887ee7b87b2/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7
+Start Time: 20110212-0429
+Hit http://ftp.de.debian.org sid InRelease
+Get:1 http://ftp.de.debian.org sid/main alpha Packages [6809 kB]
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Get:2 http://incoming.debian.org Release.gpg [835 B]
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/main alpha Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib alpha Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Get:3 http://ftp.de.debian.org sid/contrib alpha Packages [50.1 kB]
+Ign http://ftp.de.debian.org sid/contrib TranslationIndex
+Hit http://ftp.de.debian.org sid/main TranslationIndex
+Get:4 http://incoming.debian.org Release [1604 B]
+Ign http://ftp.de.debian.org sid/contrib Translation-en
+Get:5 http://incoming.debian.org Sources [31.1 kB]
+Get:6 http://incoming.debian.org Packages [421 kB]
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 7314 kB in 14s (515 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 0s (380 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 19 newly installed, 0 to remove and 1 not upgraded.
+Need to get 0 B/10.9 MB of archives.
+After this operation, 31.9 MB of additional disk space will be used.
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10099 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_alpha.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_alpha.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_alpha.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_alpha.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_alpha.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_alpha.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_alpha.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_alpha.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_alpha.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_alpha.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_alpha.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_alpha.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_alpha.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_alpha.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.26-2-alpha-generic alpha (alpha)
+Toolchain package versions: libc6.1-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.32-30 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-16 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: apt_0.8.11.1 autotools-dev_20100122.1 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.3 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc6.1_2.11.2-11 libc6.1-dev_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.10 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-10 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-9 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6.1-1 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011b-2 util-linux_2.17.2-9 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture alpha
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/./configure --build=alpha-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... alpha-unknown-linux-gnu
+checking host system type... alpha-unknown-linux-gnu
+checking target system type... alpha-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o:/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_alpha.deb'.
+ dpkg-genchanges -B -mDebian Build Daemon <buildd_alpha-goedel at buildd.debian.org> >../clustalw_2.1+lgpl-2_alpha.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110212-0435
+
+clustalw_2.1+lgpl-2_alpha.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: alpha
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: Debian Build Daemon <buildd_alpha-goedel at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 2f2f3c16a6647e3964a016390eb3e80ce8bfbfab 386638 clustalw_2.1+lgpl-2_alpha.deb
+Checksums-Sha256:
+ c6f8fc558b709bd9e89cdd5f8dd8c6a11988a10166642c50698208c3a4f80fe1 386638 clustalw_2.1+lgpl-2_alpha.deb
+Files:
+ b0da42163dfa94f9b7f23080d3acde92 386638 science optional clustalw_2.1+lgpl-2_alpha.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_alpha.deb
+─────────────────────────────
+
+ new debian package, version 2.0.
+ size 386638 bytes: control archive= 1406 bytes.
+ 1091 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: alpha
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 1044
+ Depends: libc6.1 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-12 04:35 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-12 04:35 ./usr/bin/
+-rwxr-xr-x root/root 912952 2011-02-12 04:35 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-alpha-sbuild-29bcb7d3-aab3-4ee5-ace5-1887ee7b87b2/build/buildd-clustalw_2.1+lgpl-2-alpha-4HXJR7
+(Reading database ... 11478 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing autotools-dev ...
+Removing po-debconf ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing intltool-debian ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing gettext ...
+Removing file ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing gettext-base ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing bsdmainutils ...
+Purging configuration files for bsdmainutils ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libpcre3 ...
+Purging configuration files for libpcre3 ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110212-0435
+Build needed 00:06:27, 32420k disc space
+
diff --git a/armel.log b/armel.log
new file mode 100644
index 0000000..fa5b03f
--- /dev/null
+++ b/armel.log
@@ -0,0 +1,686 @@
+From buildd at argento.debian.org Fri Feb 11 21:31:10 2011
+Return-path: <buildd at argento.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at argento.debian.org>)
+ id 1Po0a6-0006HE-2O
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 21:31:10 +0000
+Received: from argento.debian.org ([93.94.130.160])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=argento.debian.org, EMAIL=hostmaster at argento.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at argento.debian.org>)
+ id 1Po0a4-0003ts-Co; Fri, 11 Feb 2011 21:31:08 +0000
+Received: from buildd by argento.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at argento.debian.org>)
+ id 1Po0a2-0001DO-6b; Fri, 11 Feb 2011 21:31:06 +0000
+From: Build Daemon (argento) <buildd at argento.debian.org>
+To: nchip at kos.to, logs at buildd.debian.org, zumbi at kos.to
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on armel (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Po0a2-0001DO-6b at argento.debian.org>
+Date: Fri, 11 Feb 2011 21:31:06 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on argento.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (armel) 11 Feb 2011 20:45 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: armel
+Chroot Build Dir: /var/lib/schroot/mount/sid-armel-sbuild-41ceb5e7-01d1-4cb8-83a2-1cd8a7553d73/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q
+Start Time: 20110211-2045
+Hit http://ftp2.de.debian.org sid Release.gpg
+Ign http://ftp2.de.debian.org/debian/ sid/contrib Translation-en
+Ign http://ftp2.de.debian.org/debian/ sid/main Translation-en
+Hit http://ftp2.de.debian.org sid Release
+Get:1 http://incoming.debian.org sid Release.gpg [835 B]
+Ign http://incoming.debian.org/debian/ sid/contrib Translation-en
+Ign http://incoming.debian.org/debian/ sid/main Translation-en
+Get:2 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:3 http://incoming.debian.org sid Release [104 kB]
+Hit http://ftp2.de.debian.org sid/main armel Packages/DiffIndex
+Get:4 http://incoming.debian.org Release [1604 B]
+Hit http://ftp2.de.debian.org sid/contrib armel Packages/DiffIndex
+Get:5 http://incoming.debian.org sid/main Sources/DiffIndex [2038 B]
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Get:6 http://incoming.debian.org sid/main armel Packages/DiffIndex [2038 B]
+Hit http://incoming.debian.org sid/contrib armel Packages/DiffIndex
+Get:7 http://incoming.debian.org Sources [35.7 kB]
+Get:8 http://incoming.debian.org Packages [529 kB]
+Get:9 http://incoming.debian.org sid/main 2011-02-11-2016.59.pdiff [14.5 kB]
+Get:10 http://incoming.debian.org sid/main armel 2011-02-11-2016.59.pdiff [64.6 kB]
+Get:11 http://incoming.debian.org sid/main 2011-02-11-2016.59.pdiff [14.5 kB]
+Get:12 http://incoming.debian.org sid/main armel 2011-02-11-2016.59.pdiff [64.6 kB]
+Get:13 http://incoming.debian.org sid/main 2011-02-11-2016.59.pdiff [14.5 kB]
+Get:14 http://incoming.debian.org sid/main armel 2011-02-11-2016.59.pdiff [64.6 kB]
+Fetched 754 kB in 43s (17.5 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 5s (71.9 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following package was automatically installed and is no longer required:
+ udev
+Use 'apt-get autoremove' to remove them.
+The following extra packages will be installed:
+ file gettext gettext-base groff-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db
+ po-debconf
+Suggested packages:
+ devscripts doc-base dh-make gettext-doc groff less www-browser
+ libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev cdbs debhelper file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+0 upgraded, 18 newly installed, 0 to remove and 5 not upgraded.
+Need to get 0 B/9841 kB of archives.
+After this operation, 27.4 MB of additional disk space will be used.
+WARNING: The following packages cannot be authenticated!
+ groff-base libpipeline1 man-db libmagic1 file gettext-base libpcre3 libxml2
+ autotools-dev html2text libglib2.0-0 libcroco3 libunistring0 gettext
+ intltool-debian po-debconf debhelper cdbs
+debconf: delaying package configuration, since apt-utils is not installed
+Authentication warning overridden.
+Selecting previously deselected package groff-base.
+(Reading database ... 10385 files and directories currently installed.)
+Unpacking groff-base (from .../groff-base_1.21-4_armel.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_armel.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_armel.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_armel.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_armel.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_armel.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_armel.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_armel.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_armel.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_armel.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_armel.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_armel.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_armel.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.26-2-iop32x armel (armv5tel)
+Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.32-30 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-16 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: apt_0.8.10.3 autotools-dev_20100122.1 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpio_2.11-6 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.3 diffutils_1:3.0-1 dmsetup_2:1.02.48-5 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdevmapper1.02.1_2:1.02.48-5 libdpkg-perl_1.15.8.10 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgcrypt11_1.4.5-2 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgnutls26_2.10.4-2 libgomp1_4.4.5-10 libgpg-error0_1.10-0.3 libldap-2.4-2_2.4.23-7 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libopencdk10_0.6.6-1 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtasn1-3_2.7-1 libtimedate-perl_1.2000-1 libudev0_165-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-9 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6.1-1 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011b-1 udev_165-1 util-linux_2.17.2-9 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture armel
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/./configure --build=arm-linux-gnueabi --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... arm-unknown-linux-gnueabi
+checking host system type... arm-unknown-linux-gnueabi
+checking target system type... arm-unknown-linux-gnueabi
+building for linux-gnueabi
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dpkg-shlibdeps: warning: debian/clustalw/usr/bin/clustalw contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_armel.deb'.
+ dpkg-genchanges -B -marmel Build Daemon (argento) <buildd_armel-argento at buildd.debian.org> >../clustalw_2.1+lgpl-2_armel.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2130
+
+clustalw_2.1+lgpl-2_armel.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: armel
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: armel Build Daemon (argento) <buildd_armel-argento at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 91519a9681b1eae3e2e06baf44ef4c77f0e9cf94 325746 clustalw_2.1+lgpl-2_armel.deb
+Checksums-Sha256:
+ bb29edd7656a10fde8fc0ee87a3d92d02d339e7171e40e9ed2639e93fcfe762e 325746 clustalw_2.1+lgpl-2_armel.deb
+Files:
+ e590d38bb65aaddfeb95cfd330c3b26b 325746 science optional clustalw_2.1+lgpl-2_armel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_armel.deb
+─────────────────────────────
+
+ new debian package, version 2.0.
+ size 325746 bytes: control archive= 1404 bytes.
+ 1088 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: armel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 772
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 21:28 ./
+drwxr-xr-x root/root 0 2011-02-11 21:28 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 21:29 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 21:29 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 21:28 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 21:28 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 21:29 ./usr/share/doc/clustalw/
+drwxr-xr-x root/root 0 2011-02-11 21:28 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-11 21:28 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 21:29 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 21:28 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 21:29 ./usr/bin/
+-rwxr-xr-x root/root 633140 2011-02-11 21:29 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-armel-sbuild-41ceb5e7-01d1-4cb8-83a2-1cd8a7553d73/build/buildd-clustalw_2.1+lgpl-2-armel-GQOQ0Q
+(Reading database ... 11657 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing autotools-dev ...
+Removing po-debconf ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing intltool-debian ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing gettext ...
+Removing file ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing gettext-base ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libpcre3 ...
+Purging configuration files for libpcre3 ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2130
+Build needed 00:45:27, 21252k disc space
+
diff --git a/hppa.log b/hppa.log
new file mode 100644
index 0000000..b54a885
--- /dev/null
+++ b/hppa.log
@@ -0,0 +1,586 @@
+From buildd at penalosa.debian.org Mon Feb 14 11:55:51 2011
+Return-path: <buildd at penalosa.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at penalosa.debian.org>)
+ id 1Pox1y-0006e9-H7
+ for logs at buildd.debian.org; Mon, 14 Feb 2011 11:55:50 +0000
+Received: from penalosa.debian.org ([192.25.206.68])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=penalosa.debian.org,
+ EMAIL=hostmaster at penalosa.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at penalosa.debian.org>)
+ id 1Pox1w-0001Ep-La; Mon, 14 Feb 2011 11:55:49 +0000
+Received: from buildd by penalosa.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at penalosa.debian.org>)
+ id 1Pox1s-0001IC-KO; Mon, 14 Feb 2011 11:55:44 +0000
+From: buildd on penalosa <buildd at penalosa.debian.org>
+To: dannf+buildd at dannf.org,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on hppa (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Pox1s-0001IC-KO at penalosa.debian.org>
+Date: Mon, 14 Feb 2011 11:55:44 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on penalosa.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (hppa) 14 Feb 2011 11:49 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: hppa
+Chroot Build Dir: /var/lib/schroot/mount/sid-hppa-sbuild-1ed5d016-0609-4d07-b1bc-7b2aecf85748/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7
+Start Time: 20110214-1149
+Hit http://spohr.debian.org sid Release.gpg
+Ign http://spohr.debian.org/debian/ sid/contrib Translation-en
+Ign http://spohr.debian.org/debian/ sid/main Translation-en
+Hit http://spohr.debian.org sid Release
+Hit http://spohr.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid Release.gpg
+Ign http://incoming.debian.org/debian/ sid/contrib Translation-en
+Ign http://incoming.debian.org/debian/ sid/main Translation-en
+Get:1 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Hit http://spohr.debian.org sid/contrib Sources/DiffIndex
+Hit http://spohr.debian.org sid/main hppa Packages/DiffIndex
+Hit http://spohr.debian.org sid/contrib hppa Packages/DiffIndex
+Hit http://incoming.debian.org sid Release
+Get:2 http://incoming.debian.org Release [1604 B]
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/main hppa Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib hppa Packages/DiffIndex
+Get:3 http://incoming.debian.org Sources [32.2 kB]
+Get:4 http://incoming.debian.org Packages [500 kB]
+Fetched 534 kB in 7s (74.7 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://spohr.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://spohr.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://spohr.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 0s (1063 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: already installed (8.1.1 >= 8 is satisfied)
+cdbs: missing
+autotools-dev: already installed (20100122.1)
+Checking for source dependency conflicts...
+Installing positive dependencies: cdbs
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Suggested packages:
+ devscripts doc-base
+Recommended packages:
+ autotools-dev
+The following NEW packages will be installed:
+ cdbs
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 1 newly installed, 0 to remove and 24 not upgraded.
+Need to get 0 B/1268 kB of archives.
+After this operation, 1757 kB of additional disk space will be used.
+Selecting previously deselected package cdbs.
+(Reading database ... 14411 files and directories currently installed.)
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Processing triggers for man-db ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.32-5-parisc64 hppa (parisc64)
+Toolchain package versions: libc6-dev_2.11.2-10 dpkg-dev_1.15.8.6 linux-libc-dev_2.6.32-30 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-16 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: apt_0.8.10.3 autoconf_2.67-2 automake_1:1.11.1-1 autotools-dev_20100122.1 base-files_5.10 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bison_1:2.4.1.dfsg-3 bsdmainutils_8.0.17 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpio_2.11-5 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.3 debconf_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dmsetup_2:1.02.48-5 docbook_4.5-4 docbook-to-man_1:2.0.0-28 dpkg_1.15.8.6 dpkg-dev_1.15.8.6 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gawk_1:3.1.7.dfsg-5 gcc_4:4.4.5-2 gcc-4.2-base_4.2.4-6 gcc-4.3-base_4.3.5-4 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libatomic-ops-dev_7.2~alpha5+cvs20101124-1 libattr1_1:2.4.44-2 libblkid1_2.17.2-9 libbsd-dev_0.2.0-1 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-10 libc-dev-bin_2.11.2-10 libc6_2.11.2-10 libc6-dev_2.11.2-10 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-10 libdb4.8_4.8.30-4 libdevmapper1.02.1_2:1.02.48-5 libdpkg-perl_1.15.8.6 libedit-dev_2.11-20080614-2 libedit2_2.11-20080614-2 libextutils-parsexs-perl_2.220600-1 libgc1c2_1:6.8-1.2 libgcc4_4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-10 libicu-dev_4.4.2-2 libicu44_4.4.2-2 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmodule-build-perl_0.360700-1 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libncurses5-dev_5.7+20100313-5 libncursesw5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libpng12-0_1.2.44-1 libreadline5_5.2-7 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4+b1 libsp1c2_1.3.4-1.2.1-47+b1 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtool_2.2.6b-2 libudev0_165-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 libyaml-perl_0.71-1 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 lzma_4.43-14 m4_1.4.14-3 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sgml-base_1.26+nmu1 sgml-data_2.0.5 sp_1.3.4-1.2.1-47+b1 sudo_1.7.4p4-5 sysv-rc_2.88dsf-13 sysvinit_2.88dsf-13 sysvinit-utils_2.88dsf-13 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-3.3 xml-core_0.13 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture hppa
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/./configure --build=hppa-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... hppa-unknown-linux-gnu
+checking host system type... hppa-unknown-linux-gnu
+checking target system type... hppa-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... gawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_hppa.deb'.
+ dpkg-genchanges -B -mhppa Build Daemon (penalosa) <buildd_hppa-penalosa at buildd.debian.org> >../clustalw_2.1+lgpl-2_hppa.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110214-1155
+
+clustalw_2.1+lgpl-2_hppa.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: hppa
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: hppa Build Daemon (penalosa) <buildd_hppa-penalosa at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ f260e72d034efef8b778f0946a7c56e1144d6218 385084 clustalw_2.1+lgpl-2_hppa.deb
+Checksums-Sha256:
+ 062d323bab1a0d17f1810aa0345da947f1facca48c1811d0d8f1e897a2a1136c 385084 clustalw_2.1+lgpl-2_hppa.deb
+Files:
+ e28812c9c1ff49639142853001c04adc 385084 science optional clustalw_2.1+lgpl-2_hppa.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_hppa.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 385084 bytes: control archive= 1407 bytes.
+ 1086 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: hppa
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 880
+ Depends: libc6 (>= 2.11), libgcc4 (>= 4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/bin/
+-rwxr-xr-x root/root 742908 2011-02-14 11:55 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-14 11:55 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-14 11:55 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-hppa-sbuild-1ed5d016-0609-4d07-b1bc-7b2aecf85748/build/buildd-clustalw_2.1+lgpl-2-hppa-78uXe7
+(Reading database ... 14465 files and directories currently installed.)
+Removing cdbs ...
+Processing triggers for man-db ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110214-1155
+Build needed 00:06:25, 22840k disc space
+
diff --git a/hurd-i386.log b/hurd-i386.log
new file mode 100644
index 0000000..9111f77
--- /dev/null
+++ b/hurd-i386.log
@@ -0,0 +1,568 @@
+From buildd at mozart.debian.net Sat Feb 12 02:55:05 2011
+Return-path: <buildd at mozart.debian.net>
+Received: from callisto.debian.net ([80.87.129.151])
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at mozart.debian.net>)
+ id 1Po5dY-0003m9-LI
+ for logs at buildd.debian.org; Sat, 12 Feb 2011 02:55:05 +0000
+Received: from mozart.debian.net ([10.1.0.1])
+ by callisto.debian.net with esmtp (Exim 4.69)
+ (envelope-from <buildd at mozart.debian.net>)
+ id 1Po5dW-0006H9-KN; Sat, 12 Feb 2011 02:55:02 +0000
+Received: from buildd by mozart.debian.net with local (Exim 4.72)
+ (envelope-from <buildd at mozart.debian.net>)
+ id 1Po5dV-0002dO-St; Sat, 12 Feb 2011 02:55:01 +0000
+Date: Sat, 12 Feb 2011 02:55:01 +0000
+Message-Id: <E1Po5dV-0002dO-St at mozart.debian.net>
+From: Build Daemon <buildd at mozart.debian.net>
+To: samuel.thibault at labri.fr, mbanck at gmx.net, logs at debian-ports.org,
+ logs at buildd.debian.org, debian-hurd-build-logs at lists.alioth.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on hurd-i386
+ (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.59.1 (31 Jan 2010) on mozart.debian.net
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (hurd-i386) 12 févr. 2011 02:49 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: hurd-i386
+Chroot Build Dir: /home/buildd/build/chroot-sid/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP
+Start Time: 20110212-0249
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373kB of source archives.
+Get:1 http://ftp.uk.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991B]
+Get:2 http://ftp.uk.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351kB]
+Get:3 http://ftp.uk.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5kB]
+Fetched 373kB in 0s (945kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: already installed (8.0.0 >= 8 is satisfied)
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libwrap0 libcwidget3 libsigc++-2.0-0c2a libxapian15 libboost-iostreams1.42.0
+ libsysfs2
+Use 'apt-get autoremove' to remove them.
+Suggested packages:
+ devscripts doc-base
+The following NEW packages will be installed:
+ autotools-dev cdbs
+0 upgraded, 2 newly installed, 0 to remove and 52 not upgraded.
+Need to get 0B/1340kB of archives.
+After this operation, 1978kB of additional disk space will be used.
+WARNING: The following packages cannot be authenticated!
+ autotools-dev cdbs
+Authentication warning overridden.
+Selecting previously deselected package autotools-dev.
+(Reading database ... 14437 files and directories currently installed.)
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Processing triggers for man-db ...
+Setting up autotools-dev (20100122.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: GNU 0.3 hurd-i386 (i686-AT386)
+Toolchain package versions: libc0.3-dev_2.11.2-7 dpkg-dev_1.15.8.5 hurd-dev_20100926-1 gnumach-dev_2:1.3.99.dfsg.git20100732-1 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: adduser_3.112+nmu1 apt_0.8.5 apt-utils_0.8.5 autotools-dev_20100122.1 base-files_5.9 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.0.13 bsdutils_1:2.16.2-0 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 cron_3.0pl1-115 dash_0.5.5.1-7 debconf_1.5.35 debconf-english_1.5.35 debfoster_2.6-2 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_3.4.1 deborphan_1.7.28 dialog_1.1-20100428-1 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.12.4 file_5.03-5+b1 findutils_4.4.2-1 fontconfig_2.8.0-2.1 fontconfig-config_2.8.0-2.1 g++_4:4.4.4-2 g++-4.4_4.4.5-10 gawk_1:3.1.7.dfsg-5 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnumach_2:1.3.99.dfsg.git20100732-1 gnumach-dev_2:1.3.99.dfsg.git20100732-1 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.20.1-10 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 hurd_20100926-1 hurd-dev_20100926-1 initscripts_2.88dsf-12 insserv_1.14.0-2 install-info_4.13a.dfsg.1-5 intltool-debian_0.35.0+20060710.1 libacl1_2.2.47-3 libapt-pkg-dev_0.8.5 libattr1_1:2.4.44-2 libblkid1_2.16.2-0 libboost-iostreams1.42.0_1.42.0-4 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc0.3_2.11.2-7 libc0.3-dev_2.11.2-7 libc0.3-xen_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.5 libept-dev_1.0.3+b2 libept1_1.0.3+b2 libexpat1_2.0.1-7 libfontconfig1_2.8.0-2.1 libfreetype6_2.4.2-2.1 libgcc1_1:4.4.5-10 libgcrypt11_1.4.5-2 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libglib2.0-data_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgnutls26_2.10.4-2 libgomp1_4.4.5-10 libgpg-error0_1.10-0.3 libidn11_1.18-1 libldap-2.4-2_2.4.17-1 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.03-5+b1 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libncursesw5_5.7+20100313-5 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.1-6.1 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-2 libpng12-0_1.2.44-1 libpopt0_1.16-1 libpthread-stubs0_0.3-2 libpthread-stubs0-dev_0.3-2 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-5.1 libsasl2-modules_2.1.23.dfsg1-5.1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.1.4-3 libss2_1.41.12-2 libssl0.9.8_0.9.8o-5 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libsysfs2_2.1.0+repack-1 libtagcoll2-dev_2.0.11-1.1 libtasn1-3_2.7-1 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libuuid1_2.16.2-0 libwibble-dev_0.1.26-1 libwrap0_7.6.dbs-8 libxapian-dev_1.2.3-2 libxapian15_1.0.20-2 libxapian22_1.2.3-2 libxml2_2.7.8.dfsg-2 lsb-base_3.2-25 lynx-cur_2.8.8dev.8-1 make_3.81-8 man-db_2.5.7-4 mawk_1.3.3-15 mime-support_3.48-1 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-5 netbase_4.42 netcat-traditional_1.10-38 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 pkg-config_0.25-1 po-debconf_1.0.16 procps_1:3.2.7-11 psmisc_22.3-1 readline-common_6.1-3 sed_4.2.1-7 sensible-utils_0.0.4 sgml-base_1.26+nmu1 shared-mime-info_0.71-3 sudo_1.7.2p7-1 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-3 ttf-dejavu-core_2.31-1 type-handling_0.2.23 tzdata_2010m-1 ucf_3.0025+nmu1 util-linux_2.16.2-0 xml-core_0.13 xz-utils_4.999.9beta+20100810-1 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture hurd-i386
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: *** No rule to make target `distclean'.
+make: [makefile-clean] Error 2 (ignored)
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/./configure --build=i486-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+configure: WARNING: "Couldn't determine target operating system. Using Unix"
+checking build system type... i486-pc-gnu
+checking host system type... i486-pc-gnu
+checking target system type... i486-pc-gnu
+building for gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... gawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+ /usr/bin/fakeroot debian/rules binary-arch
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_hurd-i386.deb'.
+ dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org> >../clustalw_2.1+lgpl-2_hurd-i386.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110212-0254
+
+clustalw_2.1+lgpl-2_hurd-i386.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: hurd-i386
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 9e33eb990e8b3bb026e601a230abe631ad19442f 334230 clustalw_2.1+lgpl-2_hurd-i386.deb
+Checksums-Sha256:
+ e2ed198e450b9bff4cab1bae4c4883d0756b7dc43c947a9e25ff37dd15168fe3 334230 clustalw_2.1+lgpl-2_hurd-i386.deb
+Files:
+ 1d6d789d20e611164174917b0cd9aecf 334230 science optional clustalw_2.1+lgpl-2_hurd-i386.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_hurd-i386.deb
+─────────────────────────────────
+
+ new debian package, version 2.0.
+ size 334230 bytes: control archive= 1411 bytes.
+ 1093 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: hurd-i386
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 844
+ Depends: libc0.3 (>= 2.11), libgcc1 (>= 4.2.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-12 02:54 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-12 02:54 ./usr/bin/
+-rwxr-xr-x root/root 706104 2011-02-12 02:54 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /home/buildd/build/chroot-sid/build/buildd-clustalw_2.1+lgpl-2-hurd-i386-2hxuKP
+(Reading database ... 14514 files and directories currently installed.)
+Removing cdbs ...
+Removing autotools-dev ...
+Processing triggers for man-db ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110212-0254
+Build needed 00:04:57, 20904k disc space
+
diff --git a/i386.log b/i386.log
new file mode 100644
index 0000000..a10a184
--- /dev/null
+++ b/i386.log
@@ -0,0 +1,685 @@
+From buildd at murphy.debian.org Fri Feb 11 20:47:44 2011
+Return-path: <buildd at murphy.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at murphy.debian.org>)
+ id 1Pnzu3-0002BA-TC
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:47:44 +0000
+Received: from murphy.debian.org ([70.103.162.31])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=murphy.debian.org, EMAIL=hostmaster at murphy.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at murphy.debian.org>)
+ id 1Pnzu1-0002Pu-Tm; Fri, 11 Feb 2011 20:47:42 +0000
+Received: from buildd by murphy.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at murphy.debian.org>)
+ id 1Pnztz-0004ZO-OG; Fri, 11 Feb 2011 20:47:39 +0000
+From: buildd on murphy <buildd at murphy.debian.org>
+To: kurt at roeckx.be,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on i386 (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Pnztz-0004ZO-OG at murphy.debian.org>
+Date: Fri, 11 Feb 2011 20:47:39 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on murphy.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (i386) 11 Feb 2011 20:43 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: i386
+Chroot Build Dir: /var/lib/schroot/mount/sid-i386-sbuild-669a017b-22b2-4dfd-afd3-e0ea5a90fe9c/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3
+Start Time: 20110211-2043
+Hit http://ftp.us.debian.org sid InRelease
+Hit http://ftp.us.debian.org sid/main Sources/DiffIndex
+Hit http://ftp.us.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.us.debian.org sid/main i386 Packages/DiffIndex
+Hit http://ftp.us.debian.org sid/contrib i386 Packages/DiffIndex
+Ign http://ftp.us.debian.org sid/contrib TranslationIndex
+Hit http://ftp.us.debian.org sid/main TranslationIndex
+Ign http://ftp.us.debian.org sid/contrib Translation-en
+Get:1 http://incoming.debian.org sid InRelease [105 kB]
+Ign http://incoming.debian.org InRelease
+Get:2 http://incoming.debian.org Release.gpg [835 B]
+Get:3 http://incoming.debian.org sid/main Sources/DiffIndex [2038 B]
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Get:4 http://incoming.debian.org sid/main i386 Packages/DiffIndex [2038 B]
+Hit http://incoming.debian.org sid/contrib i386 Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Get:5 http://incoming.debian.org sid/main TranslationIndex [2232 B]
+Get:6 http://incoming.debian.org Release [1604 B]
+Get:7 http://incoming.debian.org sid/main 2011-02-11-2016.59.pdiff [14.5 kB]
+Get:8 http://incoming.debian.org sid/main i386 2011-02-11-2016.59.pdiff [15.2 kB]
+Get:9 http://incoming.debian.org sid/main 2011-02-11-2016.59.pdiff [14.5 kB]
+Get:10 http://incoming.debian.org Sources [35.7 kB]
+Get:11 http://incoming.debian.org Packages [529 kB]
+Get:12 http://incoming.debian.org sid/main i386 2011-02-11-2016.59.pdiff [15.2 kB]
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 707 kB in 11s (63.5 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 2min 1s (3074 B/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 19 newly installed, 0 to remove and 2 not upgraded.
+Need to get 0 B/10.1 MB of archives.
+After this operation, 28.3 MB of additional disk space will be used.
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10252 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_i386.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_i386.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_i386.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_i386.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_i386.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_i386.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_i386.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_i386.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_i386.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_i386.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_i386.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_i386.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_i386.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_i386.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.32.28-dsa-ia32 i386 (i686)
+Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.32-30 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-16 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: apt_0.8.11.1 autotools-dev_20100122.1 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.3 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.10 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-10 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-9 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6.1-1 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011b-1 util-linux_2.17.2-9 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture i386
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: *** No rule to make target `distclean'.make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/./configure --build=i486-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... i486-pc-linux-gnu
+checking host system type... i486-pc-linux-gnu
+checking target system type... i486-pc-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_i386.deb'.
+ dpkg-genchanges -B -mi386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org> >../clustalw_2.1+lgpl-2_i386.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2047
+
+clustalw_2.1+lgpl-2_i386.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: i386
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: i386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 71a7d85f0b54436ad3f834dde9b18d9214b377cf 334500 clustalw_2.1+lgpl-2_i386.deb
+Checksums-Sha256:
+ 4609e15b1be9d410efe1289b7c51161c134a68bc956c8ead88c92ba3400bb5b2 334500 clustalw_2.1+lgpl-2_i386.deb
+Files:
+ 5ae5d4e9cd9d03c22ae843ef393fbd4a 334500 science optional clustalw_2.1+lgpl-2_i386.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_i386.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 334500 bytes: control archive= 1396 bytes.
+ 1089 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: i386
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 844
+ Depends: libc6 (>= 2.1.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/bin/
+-rwxr-xr-x root/root 706104 2011-02-11 20:47 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 20:47 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-11 20:47 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-i386-sbuild-669a017b-22b2-4dfd-afd3-e0ea5a90fe9c/build/buildd-clustalw_2.1+lgpl-2-i386-4vPlU3
+(Reading database ... 11631 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing autotools-dev ...
+Removing po-debconf ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing intltool-debian ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing gettext ...
+Removing file ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing gettext-base ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing bsdmainutils ...
+Purging configuration files for bsdmainutils ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libpcre3 ...
+Purging configuration files for libpcre3 ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2047
+Build needed 00:03:53, 20856k disc space
+
diff --git a/ia64.log b/ia64.log
new file mode 100644
index 0000000..a31300d
--- /dev/null
+++ b/ia64.log
@@ -0,0 +1,672 @@
+From buildd at alkman.debian.org Fri Feb 11 20:51:48 2011
+Return-path: <buildd at alkman.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at alkman.debian.org>)
+ id 1Pnzy0-0002dq-0W
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:51:48 +0000
+Received: from alkman.debian.org ([192.25.206.63])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=alkman.debian.org, EMAIL=hostmaster at alkman.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at alkman.debian.org>)
+ id 1Pnzxy-00018m-M9
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:51:47 +0000
+Received: from buildd by alkman.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at alkman.debian.org>)
+ id 1Pnzxv-0001fa-40; Fri, 11 Feb 2011 20:51:43 +0000
+From: buildd on alkman <buildd at alkman.debian.org>
+To: buildd-porters at alkman.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on ia64 (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Pnzxv-0001fa-40 at alkman.debian.org>
+Date: Fri, 11 Feb 2011 20:51:43 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on alkman.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (ia64) 11 Feb 2011 20:45 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: ia64
+Chroot Build Dir: /var/lib/schroot/mount/sid-ia64-sbuild-7ca7af8d-a217-4f62-8162-abfcce2296e2/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F
+Start Time: 20110211-2045
+Get:1 http://spohr.debian.org unstable Release.gpg [835 B]
+Ign http://spohr.debian.org/debian/ unstable/contrib Translation-en
+Ign http://spohr.debian.org/debian/ unstable/main Translation-en
+Get:2 http://spohr.debian.org unstable Release [104 kB]
+Get:3 http://spohr.debian.org unstable/main Sources [4164 kB]
+Get:4 http://spohr.debian.org unstable/contrib Sources [39.1 kB]
+Get:5 http://spohr.debian.org unstable/non-free Sources [84.0 kB]
+Get:6 http://spohr.debian.org unstable/main ia64 Packages [6802 kB]
+Get:7 http://spohr.debian.org unstable/contrib ia64 Packages [51.0 kB]
+Get:8 http://incoming.debian.org unstable Release.gpg [835 B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:9 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:10 http://incoming.debian.org unstable Release [104 kB]
+Get:11 http://incoming.debian.org Release [1604 B]
+Get:12 http://incoming.debian.org unstable/main Sources [4164 kB]
+Get:13 http://incoming.debian.org unstable/contrib Sources [39.1 kB]
+Get:14 http://incoming.debian.org unstable/non-free Sources [84.0 kB]
+Get:15 http://incoming.debian.org unstable/main ia64 Packages [6783 kB]
+Get:16 http://incoming.debian.org unstable/contrib ia64 Packages [51.0 kB]
+Get:17 http://incoming.debian.org Sources [35.7 kB]
+Get:18 http://incoming.debian.org Packages [529 kB]
+Fetched 23.0 MB in 54s (426 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 1s (204 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 52 not upgraded.
+Need to get 11.6 MB of archives.
+After this operation, 38.3 MB of additional disk space will be used.
+Get:1 http://spohr.debian.org/debian/ unstable/main bsdmainutils ia64 8.2.2 [236 kB]
+Get:2 http://spohr.debian.org/debian/ unstable/main groff-base ia64 1.21-4 [1400 kB]
+Get:3 http://spohr.debian.org/debian/ unstable/main libpipeline1 ia64 1.1.0-1 [46.5 kB]
+Get:4 http://spohr.debian.org/debian/ unstable/main man-db ia64 2.5.9-4 [1154 kB]
+Get:5 http://spohr.debian.org/debian/ unstable/main libmagic1 ia64 5.04-5 [263 kB]
+Get:6 http://spohr.debian.org/debian/ unstable/main file ia64 5.04-5 [51.9 kB]
+Get:7 http://spohr.debian.org/debian/ unstable/main gettext-base ia64 0.18.1.1-3 [174 kB]
+Get:8 http://spohr.debian.org/debian/ unstable/main libpcre3 ia64 8.12-2 [316 kB]
+Get:9 http://spohr.debian.org/debian/ unstable/main libxml2 ia64 2.7.8.dfsg-2 [1181 kB]
+Get:10 http://spohr.debian.org/debian/ unstable/main autotools-dev all 20100122.1 [71.9 kB]
+Get:11 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
+Get:12 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.24.2-1 [1395 kB]
+Get:13 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-1 [155 kB]
+Get:14 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-3 [469 kB]
+Get:15 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-3 [2453 kB]
+Get:16 http://spohr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://spohr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://spohr.debian.org/debian/ unstable/main debhelper all 8.1.1 [552 kB]
+Get:19 http://spohr.debian.org/debian/ unstable/main cdbs all 0.4.92 [1268 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 11.6 MB in 2s (3886 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10104 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_ia64.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_ia64.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_ia64.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_ia64.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_ia64.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_ia64.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_ia64.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_ia64.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_ia64.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_ia64.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_ia64.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_ia64.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_ia64.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_ia64.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.24.2-1) ...
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.32-bpo.5-mckinley ia64 (ia64)
+Toolchain package versions: libc6.1-dev_2.11.2-7 dpkg-dev_1.15.8.6 linux-libc-dev_2.6.32-27 gcc-4.4_4.4.5-8 g++-4.4_4.4.5-8 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-8 libstdc++6_4.4.5-8
+Package versions: apt_0.8.9 autotools-dev_20100122.1 base-files_5.10 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-1 cpp-4.4_4.4.5-8 dash_0.5.5.1-7.2 debconf_1.5.36 debconf-i18n_1.5.36 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.6 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-1 g++-4.4_4.4.5-8 gcc_4:4.4.5-1 gcc-4.4_4.4.5-8 gcc-4.4-base_4.4.5-8 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.3 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6.1_2.11.2-7 libc6.1-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-10 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.6 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-8 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-8 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-4 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-8 libstdc++6-4.4-dev_4.4.5-8 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libunwind7_0.99-0.2 libunwind7-dev_0.99-0.2 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-3.3 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-27 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 lzma_4.43-14 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-16 perl-base_5.10.1-16 perl-modules_5.10.1-16 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.5 sudo_1.7.4p4-4 sysv-rc_2.88dsf-13 sysvinit_2.88dsf-13 sysvinit-utils_2.88dsf-13 tar_1.25-2 tzdata_2010o-1 util-linux_2.17.2-3.3 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture ia64
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/./configure --build=ia64-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... ia64-unknown-linux-gnu
+checking host system type... ia64-unknown-linux-gnu
+checking target system type... ia64-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_ia64.deb'.
+ dpkg-genchanges -B -mia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org> >../clustalw_2.1+lgpl-2_ia64.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2051
+
+clustalw_2.1+lgpl-2_ia64.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: ia64
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: ia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ b6693e6a34e47c7b550eef09eb1cc1fb0799f25b 496078 clustalw_2.1+lgpl-2_ia64.deb
+Checksums-Sha256:
+ ae494ee2adde96930fdd8a518a469b6c5f1e9c3776b31e9c8a81e44efda97519 496078 clustalw_2.1+lgpl-2_ia64.deb
+Files:
+ 667d6fe703ed5fbf720cd2b491c07054 496078 science optional clustalw_2.1+lgpl-2_ia64.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_ia64.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 496078 bytes: control archive= 1407 bytes.
+ 1102 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: ia64
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 1728
+ Depends: libc6.1 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), libunwind7
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/bin/
+-rwxr-xr-x root/root 1466128 2011-02-11 20:51 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 20:51 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-ia64-sbuild-7ca7af8d-a217-4f62-8162-abfcce2296e2/build/buildd-clustalw_2.1+lgpl-2-ia64-EgUy2F
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2051
+Build needed 00:06:27, 37724k disc space
+
diff --git a/info b/info
new file mode 100644
index 0000000..49f4260
--- /dev/null
+++ b/info
@@ -0,0 +1,13 @@
+i386~1297457265~sid~successful
+s390~1297457332~sid~successful
+powerpc~1297457474~sid~successful
+ia64~1297457508~sid~successful
+kfreebsd-amd64~1297457803~sid~successful
+kfreebsd-i386~1297457918~sid~successful
+mipsel~1297458969~sid~successful
+armel~1297459871~sid~successful
+hurd-i386~1297479305~sid~successful
+alpha~1297485381~sid~successful
+sparc~1297517983~sid~successful
+mips~1297581645~sid~successful
+hppa~1297684552~sid~successful
diff --git a/kfreebsd-amd64.log b/kfreebsd-amd64.log
new file mode 100644
index 0000000..360692e
--- /dev/null
+++ b/kfreebsd-amd64.log
@@ -0,0 +1,674 @@
+From buildd at fano.debian.org Fri Feb 11 20:56:43 2011
+Return-path: <buildd at fano.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at fano.debian.org>)
+ id 1Po02k-0003Ag-QY
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:56:43 +0000
+Received: from fano.debian.org ([206.12.19.110])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=fano.debian.org, EMAIL=hostmaster at fano.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at fano.debian.org>)
+ id 1Po02i-0002h9-Q5; Fri, 11 Feb 2011 20:56:41 +0000
+Received: from buildd by fano.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at fano.debian.org>)
+ id 1Po02g-000Atb-71; Fri, 11 Feb 2011 20:56:38 +0000
+Date: Fri, 11 Feb 2011 20:56:38 +0000
+Message-Id: <E1Po02g-000Atb-71 at fano.debian.org>
+From: buildd on fano <buildd at fano.debian.org>
+To: logs at buildd.debian.org,aurelien at aurel32.net,kibi at debian-ports.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on kfreebsd-amd64
+ (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on fano.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (kfreebsd-amd64) 11 Feb 2011 20:54 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: kfreebsd-amd64
+Chroot Build Dir: /var/lib/schroot/mount/sid-ka-sbuild-1297457677-39569/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL
+Start Time: 20110211-2054
+Hit http://incoming.debian.org sid Release.gpg
+Ign http://incoming.debian.org/debian/ sid/contrib Translation-en
+Ign http://incoming.debian.org/debian/ sid/main Translation-en
+Hit http://ftp.ca.debian.org sid Release.gpg
+Ign http://incoming.debian.org/debian/ sid/non-free Translation-en
+Hit http://incoming.debian.org Release.gpg
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Hit http://incoming.debian.org sid Release
+Ign http://ftp.ca.debian.org/debian/ sid/main Translation-en
+Hit http://incoming.debian.org Release
+Hit http://ftp.ca.debian.org sid Release
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://ftp.ca.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
+Hit http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib kfreebsd-amd64 Packages/DiffIndex
+Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages/DiffIndex
+Hit http://incoming.debian.org Sources
+Hit http://incoming.debian.org Packages
+Hit http://ftp.ca.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
+Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 1s (212 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ file gettext gettext-base groff-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db
+ po-debconf
+Suggested packages:
+ devscripts doc-base dh-make gettext-doc groff less www-browser
+ libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev cdbs debhelper file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 18 newly installed, 0 to remove and 7 not upgraded.
+Need to get 0 B/10.2 MB of archives.
+After this operation, 27.0 MB of additional disk space will be used.
+Selecting previously deselected package groff-base.
+(Reading database ... 11820 files and directories currently installed.)
+Unpacking groff-base (from .../groff-base_1.21-4_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_kfreebsd-amd64.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_kfreebsd-amd64.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5_kfreebsd-amd64.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_kfreebsd-amd64.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_kfreebsd-amd64.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_kfreebsd-amd64.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_kfreebsd-amd64.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: GNU/kFreeBSD 8.1-1-amd64 kfreebsd-amd64 (x86_64)
+Toolchain package versions: libc6-dev_ =*=NOT INSTALLED=*= dpkg-dev_1.15.8.10 libstdc++6_4.4.5-10 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-16 libstdc++6-4.4-dev_4.4.5-10 libc0.1-dev_2.11.2-11 kfreebsd-kernel-headers_0.53
+Package versions: apt_0.8.10.3 autotools-dev_20100122.1 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpio_2.11-6 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.3+b1 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1+b1 file_5.04-5 findutils_4.4.2-1 freebsd-utils_8.1-4+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.2-base_4.2.4-6 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.53 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc0.1_2.11.2-11 libc0.1-dev_2.11.2-11 libcam0_8.1-5 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.10 libedit2_2.11-20080614-2 libexpat1_2.0.1-7 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgcrypt11_1.4.5-2 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgnutls26_2.10.4-2 libgomp1_4.4.5-10 libgpg-error0_1.10-0.3 libkiconv4_8.1-5 libkvm0_8.1-5 libldap-2.4-2_2.4.23-7 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libncursesw5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libpng12-0_1.2.44-1 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libsbuf0_8.1-5 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtasn1-3_2.7-1 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 lzma_4.43-14 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.13-1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 type-handling_0.2.23 tzdata_2011a-1 ufsutils_7.3-1+b1 util-linux_2.17.2-9 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture kfreebsd-amd64
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/./configure --build=x86_64-kfreebsd-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... x86_64-pc-kfreebsd-gnu
+checking host system type... x86_64-pc-kfreebsd-gnu
+checking target system type... x86_64-pc-kfreebsd-gnu
+building for kfreebsd-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_kfreebsd-amd64.deb'.
+ dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../clustalw_2.1+lgpl-2_kfreebsd-amd64.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2056
+
+clustalw_2.1+lgpl-2_kfreebsd-amd64.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: kfreebsd-amd64
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: kfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ da0d688c846691b825690f8a227f72fff45055bb 345884 clustalw_2.1+lgpl-2_kfreebsd-amd64.deb
+Checksums-Sha256:
+ 6d39e9518c2c513fcbb5fdc5e562a42e35c6f01b1fc3fce5416b8a0f22af7ff8 345884 clustalw_2.1+lgpl-2_kfreebsd-amd64.deb
+Files:
+ f0749282b91d673130c800f50d1ef378 345884 science optional clustalw_2.1+lgpl-2_kfreebsd-amd64.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_kfreebsd-amd64.deb
+──────────────────────────────────────
+
+ new debian package, version 2.0.
+ size 345884 bytes: control archive= 1398 bytes.
+ 1075 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: kfreebsd-amd64
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 832
+ Depends: libc0.1 (>= 2.3), libgcc1, libstdc++6
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 20:56 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 20:56 ./usr/bin/
+-rwxr-xr-x root/root 724280 2011-02-11 20:56 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-ka-sbuild-1297457677-39569/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-amd64-MSlaaL
+(Reading database ... 13091 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing autotools-dev ...
+Removing po-debconf ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing intltool-debian ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing gettext ...
+Removing file ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing gettext-base ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libpcre3 ...
+Purging configuration files for libpcre3 ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2056
+Build needed 00:01:51, 29438k disc space
+
diff --git a/kfreebsd-i386.log b/kfreebsd-i386.log
new file mode 100644
index 0000000..1a21379
--- /dev/null
+++ b/kfreebsd-i386.log
@@ -0,0 +1,678 @@
+From buildd at finzi.debian.org Fri Feb 11 20:58:37 2011
+Return-path: <buildd at finzi.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at finzi.debian.org>)
+ id 1Po04b-0003GR-G6
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:58:37 +0000
+Received: from finzi.debian.org ([206.12.19.111])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=finzi.debian.org, EMAIL=hostmaster at finzi.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at finzi.debian.org>)
+ id 1Po04Z-0002jC-A8; Fri, 11 Feb 2011 20:58:35 +0000
+Received: from buildd by finzi.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at finzi.debian.org>)
+ id 1Po04W-000KJc-Lb; Fri, 11 Feb 2011 20:58:32 +0000
+Date: Fri, 11 Feb 2011 20:58:32 +0000
+Message-Id: <E1Po04W-000KJc-Lb at finzi.debian.org>
+From: buildd on finzi <buildd at finzi.debian.org>
+To: logs at buildd.debian.org,aurelien at aurel32.net,kibi at debian-ports.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on kfreebsd-i386
+ (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on finzi.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (kfreebsd-i386) 11 Feb 2011 20:56 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: kfreebsd-i386
+Chroot Build Dir: /var/lib/schroot/mount/sid-ki-sbuild-1297457785-75833/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz
+Start Time: 20110211-2056
+Hit http://ftp.ca.debian.org sid InRelease
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Hit http://ftp.ca.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org Release.gpg
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://ftp.ca.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.ca.debian.org sid/non-free Sources/DiffIndex
+Hit http://ftp.ca.debian.org sid/main kfreebsd-i386 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
+Hit http://incoming.debian.org sid/main kfreebsd-i386 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
+Hit http://incoming.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Ign http://incoming.debian.org sid/non-free TranslationIndex
+Hit http://ftp.ca.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
+Hit http://ftp.ca.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
+Ign http://ftp.ca.debian.org sid/contrib TranslationIndex
+Hit http://ftp.ca.debian.org sid/main TranslationIndex
+Ign http://ftp.ca.debian.org sid/non-free TranslationIndex
+Hit http://incoming.debian.org Release
+Hit http://incoming.debian.org Sources
+Hit http://incoming.debian.org Packages
+Ign http://ftp.ca.debian.org sid/contrib Translation-en
+Ign http://ftp.ca.debian.org sid/non-free Translation-en
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org sid/non-free Translation-en
+Ign http://incoming.debian.org Translation-en
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ sid/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 1s (194 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: already installed (20100122.1)
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ file gettext gettext-base groff-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db
+ po-debconf
+Suggested packages:
+ devscripts doc-base dh-make gettext-doc groff less www-browser
+ libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ cdbs debhelper file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 17 newly installed, 0 to remove and 6 not upgraded.
+Need to get 0 B/9750 kB of archives.
+After this operation, 25.6 MB of additional disk space will be used.
+Selecting previously deselected package groff-base.
+(Reading database ... 13419 files and directories currently installed.)
+Unpacking groff-base (from .../groff-base_1.21-4_kfreebsd-i386.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_kfreebsd-i386.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_kfreebsd-i386.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_kfreebsd-i386.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5_kfreebsd-i386.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_kfreebsd-i386.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_kfreebsd-i386.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_kfreebsd-i386.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-i386.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_kfreebsd-i386.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_kfreebsd-i386.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_kfreebsd-i386.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_kfreebsd-i386.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: GNU/kFreeBSD 8.1-1-686 kfreebsd-i386 (i686)
+Toolchain package versions: libc6-dev_ =*=NOT INSTALLED=*= dpkg-dev_1.15.8.10 libstdc++6_4.4.5-10 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-16 libstdc++6-4.4-dev_4.4.5-10 libc0.1-dev_2.11.2-11 kfreebsd-kernel-headers_0.53
+Package versions: apt_0.8.11.1 autotools-dev_20100122.1 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpio_2.11-6 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.3+b1 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1+b1 file_5.04-5 findutils_4.4.2-1 freebsd-utils_8.1-4 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.2-base_4.2.4-6 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.53 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc0.1_2.11.2-11 libc0.1-dev_2.11.2-11 libcam0_8.1-5 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.10 libedit2_2.11-20080614-2 libexpat1_2.0.1-7 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgcrypt11_1.4.5-2 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgnutls26_2.10.4-2 libgomp1_4.4.5-10 libgpg-error0_1.10-0.3 libkiconv4_8.1-5 libkvm0_8.1-5 libldap-2.4-2_2.4.23-7 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libncursesw5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libpng12-0_1.2.44-1 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libsbuf0_8.1-5 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtasn1-3_2.7-1 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 lzma_4.43-14 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 netbase_4.45 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.13-1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 type-handling_0.2.23 tzdata_2011a-1 ufsutils_7.3-1+b1 util-linux_2.17.2-9 vim_2:7.3.035+hg~8fdc12103333-1 vim-common_2:7.3.035+hg~8fdc12103333-1 vim-runtime_2:7.3.035+hg~8fdc12103333-1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture kfreebsd-i386
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/./configure --build=i486-kfreebsd-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... i486-pc-kfreebsd-gnu
+checking host system type... i486-pc-kfreebsd-gnu
+checking target system type... i486-pc-kfreebsd-gnu
+building for kfreebsd-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_kfreebsd-i386.deb'.
+ dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (finzi) <buildd_kfreebsd-i386-finzi at buildd.debian.org> >../clustalw_2.1+lgpl-2_kfreebsd-i386.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2058
+
+clustalw_2.1+lgpl-2_kfreebsd-i386.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: kfreebsd-i386
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: kfreebsd-i386 Build Daemon (finzi) <buildd_kfreebsd-i386-finzi at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ ed35a7762dcc11d28a656669224ea7aecc9bee1e 334074 clustalw_2.1+lgpl-2_kfreebsd-i386.deb
+Checksums-Sha256:
+ c9bc5a77434cdb5eec7e1bb7f2c3e097b1ffec94ae48958d6805b97b0356e921 334074 clustalw_2.1+lgpl-2_kfreebsd-i386.deb
+Files:
+ 85067a4c2ac16d39e84cde0d4e072b5b 334074 science optional clustalw_2.1+lgpl-2_kfreebsd-i386.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_kfreebsd-i386.deb
+─────────────────────────────────────
+
+ new debian package, version 2.0.
+ size 334074 bytes: control archive= 1396 bytes.
+ 1074 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: kfreebsd-i386
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 816
+ Depends: libc0.1 (>= 2.3), libgcc1, libstdc++6
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 20:58 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 20:58 ./usr/bin/
+-rwxr-xr-x root/root 706104 2011-02-11 20:58 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-ki-sbuild-1297457785-75833/build/buildd-clustalw_2.1+lgpl-2-kfreebsd-i386-ZE1edz
+(Reading database ... 14671 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing po-debconf ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing intltool-debian ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing gettext ...
+Removing file ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing gettext-base ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libpcre3 ...
+Purging configuration files for libpcre3 ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2058
+Build needed 00:01:58, 20996k disc space
+
diff --git a/mips.log b/mips.log
new file mode 100644
index 0000000..39f6e3c
--- /dev/null
+++ b/mips.log
@@ -0,0 +1,1345 @@
+From buildd at lucatelli.debian.org Sun Feb 13 07:20:44 2011
+Return-path: <buildd at lucatelli.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at lucatelli.debian.org>)
+ id 1PoWGB-0007M1-RT
+ for logs at buildd.debian.org; Sun, 13 Feb 2011 07:20:44 +0000
+Received: from lucatelli.debian.org ([2607:f8f0:610:4000:2e0:98ff:fe00:4141])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=lucatelli.debian.org,
+ EMAIL=hostmaster at lucatelli.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at lucatelli.debian.org>)
+ id 1PoWG9-00023C-7x; Sun, 13 Feb 2011 07:20:41 +0000
+Received: from buildd by lucatelli.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at lucatelli.debian.org>)
+ id 1PoWG3-0002iB-Qr; Sun, 13 Feb 2011 07:20:35 +0000
+From: buildd on lucatelli <buildd at lucatelli.debian.org>
+To: aba at debian.org,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on mips (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1PoWG3-0002iB-Qr at lucatelli.debian.org>
+Date: Sun, 13 Feb 2011 07:20:35 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on lucatelli.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (mips) 13 Feb 2011 07:01 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: mips
+Chroot Build Dir: /var/lib/schroot/mount/sid-mips-sbuild-d1723356-c1a6-4fbf-bb64-dd6c1096fc03/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN
+Start Time: 20110213-0701
+Get:1 http://mirrors.ece.ubc.ca unstable Release.gpg [835B]
+Ign http://mirrors.ece.ubc.ca/debian/ unstable/contrib Translation-en
+Ign http://mirrors.ece.ubc.ca/debian/ unstable/main Translation-en
+Get:2 http://mirrors.ece.ubc.ca unstable Release [104kB]
+Get:3 http://incoming.debian.org unstable Release.gpg [835B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:4 http://mirrors.ece.ubc.ca unstable/main Sources [4159kB]
+Get:5 http://incoming.debian.org Release.gpg [835B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:6 http://incoming.debian.org unstable Release [104kB]
+Get:7 http://incoming.debian.org Release [1604B]
+Get:8 http://mirrors.ece.ubc.ca unstable/contrib Sources [39.1kB]
+Get:9 http://mirrors.ece.ubc.ca unstable/non-free Sources [84.0kB]
+Get:10 http://incoming.debian.org unstable/main Sources [4159kB]
+Get:11 http://mirrors.ece.ubc.ca unstable/main mips Packages [6793kB]
+Get:12 http://mirrors.ece.ubc.ca unstable/contrib mips Packages [50.7kB]
+Get:13 http://incoming.debian.org unstable/contrib Sources [39.1kB]
+Get:14 http://incoming.debian.org unstable/non-free Sources [84.0kB]
+Get:15 http://incoming.debian.org unstable/main mips Packages [6793kB]
+Get:16 http://incoming.debian.org unstable/contrib mips Packages [50.7kB]
+Get:17 http://incoming.debian.org Sources [31.1kB]
+Get:18 http://incoming.debian.org Packages [369kB]
+Fetched 22.9MB in 50s (451kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373kB of source archives.
+Get:1 http://mirrors.ece.ubc.ca/debian/ unstable/main clustalw 2.1+lgpl-2 (dsc) [1991B]
+Get:2 http://mirrors.ece.ubc.ca/debian/ unstable/main clustalw 2.1+lgpl-2 (tar) [351kB]
+Get:3 http://mirrors.ece.ubc.ca/debian/ unstable/main clustalw 2.1+lgpl-2 (diff) [20.5kB]
+Fetched 373kB in 0s (2937kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 65 not upgraded.
+Need to get 10.3MB of archives.
+After this operation, 30.8MB of additional disk space will be used.
+Get:1 http://mirrors.ece.ubc.ca/debian/ unstable/main bsdmainutils mips 8.2.2 [210kB]
+Get:2 http://mirrors.ece.ubc.ca/debian/ unstable/main groff-base mips 1.21-4 [1203kB]
+Get:3 http://mirrors.ece.ubc.ca/debian/ unstable/main libpipeline1 mips 1.1.0-1 [35.1kB]
+Get:4 http://mirrors.ece.ubc.ca/debian/ unstable/main man-db mips 2.5.9-4 [997kB]
+Get:5 http://mirrors.ece.ubc.ca/debian/ unstable/main libmagic1 mips 5.04-5 [239kB]
+Get:6 http://mirrors.ece.ubc.ca/debian/ unstable/main file mips 5.04-5 [49.7kB]
+Get:7 http://mirrors.ece.ubc.ca/debian/ unstable/main gettext-base mips 0.18.1.1-3 [153kB]
+Get:8 http://mirrors.ece.ubc.ca/debian/ unstable/main libpcre3 mips 8.12-2 [262kB]
+Get:9 http://mirrors.ece.ubc.ca/debian/ unstable/main libxml2 mips 2.7.8.dfsg-2 [837kB]
+Get:10 http://mirrors.ece.ubc.ca/debian/ unstable/main autotools-dev all 20100122.1 [71.9kB]
+Get:11 http://mirrors.ece.ubc.ca/debian/ unstable/main html2text mips 1.3.2a-15 [103kB]
+Get:12 http://mirrors.ece.ubc.ca/debian/ unstable/main libglib2.0-0 mips 2.28.0-1 [1497kB]
+Get:13 http://mirrors.ece.ubc.ca/debian/ unstable/main libcroco3 mips 0.6.2-1 [110kB]
+Get:14 http://mirrors.ece.ubc.ca/debian/ unstable/main libunistring0 mips 0.9.3-3 [415kB]
+Get:15 http://mirrors.ece.ubc.ca/debian/ unstable/main gettext mips 0.18.1.1-3 [2037kB]
+Get:16 http://mirrors.ece.ubc.ca/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8kB]
+Get:17 http://mirrors.ece.ubc.ca/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223kB]
+Get:18 http://mirrors.ece.ubc.ca/debian/ unstable/main debhelper all 8.1.1 [552kB]
+Get:19 http://mirrors.ece.ubc.ca/debian/ unstable/main cdbs all 0.4.92 [1268kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 10.3MB in 1s (5920kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10135 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_mips.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_mips.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_mips.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_mips.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_mips.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_mips.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mips.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_mips.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_mips.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mips.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_mips.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mips.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_mips.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_mips.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.35.4-dsa-octeon mips (mips64)
+Toolchain package versions: libc6-dev_2.11.2-6 dpkg-dev_1.15.8.5 linux-libc-dev_2.6.32-22 gcc-4.4_4.4.4-14 g++-4.4_4.4.4-14 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.4-14 libstdc++6_4.4.4-14
+Package versions: apt_0.8.5 autotools-dev_20100122.1 base-files_5.9 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-3.1 build-essential_11.5 bzip2_1.0.5-5 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.4-2 cpp-4.4_4.4.4-14 dash_0.5.5.1-7 debconf_1.5.35 debconf-i18n_1.5.35 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1 g++_4:4.4.4-2 g++-4.4_4.4.4-14 gcc_4:4.4.4-2 gcc-4.4_4.4.4-14 gcc-4.4-base_4.4.4-14 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 initscripts_2.88dsf-12 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-3 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.1 libbz2-1.0_1.0.5-5 libc-bin_2.11.2-6 libc-dev-bin_2.11.2-6 libc6_2.11.2-6 libc6-dev_2.11.2-6 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-9 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.5 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.4-14 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.4-14 liblocale-gettext-perl_1.05-6 liblzma2_4.999.9beta+20100810-1 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-3 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.1-6 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.4-14 libstdc++6-4.4-dev_4.4.4-14 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-3.1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-22 login_1:4.1.4.2+svn3283-1 lsb-base_3.2-23.1 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-3.1 ncurses-base_5.7+20100313-3 ncurses-bin_5.7+20100313-3 passwd_1:4.1.4.2+svn3283-1 patch_2.6-2 perl_5.10.1-14 perl-base_5.10.1-14 perl-modules_5.10.1-14 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-7 sensible-utils_0.0.4 sudo_1.7.4p4-2 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-2.1 tzdata_2010l-1 util-linux_2.17.2-3.1 xz-utils_4.999.9beta+20100810-1 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture mips
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: *** No rule to make target `distclean'.
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/./configure --build=mips-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... mips-unknown-linux-gnu
+checking host system type... mips-unknown-linux-gnu
+checking target system type... mips-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o:/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_mips.deb'.
+ dpkg-genchanges -B -mmips Build Daemon (lucatelli) <buildd_mips-lucatelli at buildd.debian.org> >../clustalw_2.1+lgpl-2_mips.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110213-0720
+
+clustalw_2.1+lgpl-2_mips.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: mips
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: mips Build Daemon (lucatelli) <buildd_mips-lucatelli at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 921d652b115099099f732d2889dbb2ccc7930264 350924 clustalw_2.1+lgpl-2_mips.deb
+Checksums-Sha256:
+ 7c18b311d07383015c1db0f6453ce1715db34ad50dc48f715f4dd00281e8302a 350924 clustalw_2.1+lgpl-2_mips.deb
+Files:
+ 062883e7e3a592a6c3a1ad2b5a5f1224 350924 science optional clustalw_2.1+lgpl-2_mips.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_mips.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 350924 bytes: control archive= 1406 bytes.
+ 1088 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: mips
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 1092
+ Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/bin/
+-rwxr-xr-x root/root 962168 2011-02-13 07:19 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/doc/clustalw/
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-13 07:19 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-13 07:19 ./usr/share/man/man1/clustalw.1.gz
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-mips-sbuild-d1723356-c1a6-4fbf-bb64-dd6c1096fc03/build/buildd-clustalw_2.1+lgpl-2-mips-jaqtkN
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110213-0720
+Build needed 00:19:27, 22428k disc space
+
+From buildd at monteverdi.ayous.org Fri Feb 11 21:16:09 2011
+Return-path: <buildd at monteverdi.ayous.org>
+Received: from monteverdi.ayous.org ([2001:a60:f006:deb:20a:1ff:fe00:987])
+ by grieg.debian.org with esmtp (Exim 4.69)
+ (envelope-from <buildd at monteverdi.ayous.org>) id 1Po0LX-0004v9-MD
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 21:16:09 +0000
+Received: from buildd by monteverdi.ayous.org with local (Exim 4.69)
+ (envelope-from <buildd at monteverdi.ayous.org>)
+ id 1Po08t-000671-L6; Fri, 11 Feb 2011 21:03:03 +0000
+From: buildd on monteverdi <buildd at monteverdi.ayous.org>
+To: aba+buildd_monteverdi at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on mipsel (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Po08t-000671-L6 at monteverdi.ayous.org>
+Date: Fri, 11 Feb 2011 21:03:03 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on monteverdi.ayous.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (mipsel) 11 Feb 2011 20:50 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: mipsel
+Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-7b7eb9e6-5ba9-4b54-834e-c4bcf86a690c/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ
+Start Time: 20110211-2050
+Get:1 http://incoming.debian.org unstable Release.gpg [835 B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:2 http://mirror.ayous.org unstable Release.gpg [835 B]
+Ign http://mirror.ayous.org/debian/ unstable/contrib Translation-en
+Ign http://mirror.ayous.org/debian/ unstable/main Translation-en
+Get:3 http://mirror.ayous.org unstable Release [104 kB]
+Ign http://mirror.ayous.org unstable/main Sources
+Ign http://mirror.ayous.org unstable/contrib Sources
+Ign http://mirror.ayous.org unstable/non-free Sources
+Ign http://mirror.ayous.org unstable/main mipsel Packages
+Ign http://mirror.ayous.org unstable/contrib mipsel Packages
+Get:4 http://mirror.ayous.org unstable/main Sources [5348 kB]
+Get:5 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:6 http://mirror.ayous.org unstable/contrib Sources [46.7 kB]
+Get:7 http://incoming.debian.org unstable Release [104 kB]
+Get:8 http://mirror.ayous.org unstable/non-free Sources [100 kB]
+Get:9 http://mirror.ayous.org unstable/main mipsel Packages [8938 kB]
+Get:10 http://incoming.debian.org Release [1604 B]
+Ign http://incoming.debian.org unstable/main Sources
+Ign http://incoming.debian.org unstable/contrib Sources
+Ign http://incoming.debian.org unstable/non-free Sources
+Ign http://incoming.debian.org unstable/main mipsel Packages
+Ign http://incoming.debian.org unstable/contrib mipsel Packages
+Get:11 http://incoming.debian.org unstable/main Sources [5348 kB]
+Get:12 http://incoming.debian.org unstable/contrib Sources [46.7 kB]
+Get:13 http://incoming.debian.org unstable/non-free Sources [100 kB]
+Get:14 http://incoming.debian.org unstable/main mipsel Packages [8938 kB]
+Get:15 http://mirror.ayous.org unstable/contrib mipsel Packages [61.6 kB]
+Get:16 http://incoming.debian.org unstable/contrib mipsel Packages [61.6 kB]
+Ign http://incoming.debian.org Sources
+Ign http://incoming.debian.org Packages
+Get:17 http://incoming.debian.org Sources [41.3 kB]
+Get:18 http://incoming.debian.org Packages [734 kB]
+Fetched 30.0 MB in 42s (712 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 4s (74.9 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 60 not upgraded.
+Need to get 10.2 MB of archives.
+After this operation, 30.8 MB of additional disk space will be used.
+Get:1 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.2 [207 kB]
+Get:2 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.21-4 [1190 kB]
+Get:3 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.1.0-1 [34.5 kB]
+Get:4 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.5.9-4 [980 kB]
+Get:5 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.04-5 [238 kB]
+Get:6 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.04-5 [49.5 kB]
+Get:7 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-3 [152 kB]
+Get:8 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-2 [261 kB]
+Get:9 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-2 [833 kB]
+Get:10 http://mirror.ayous.org/debian/ unstable/main autotools-dev all 20100122.1 [71.9 kB]
+Get:11 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get:12 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.28.0-1 [1491 kB]
+Get:13 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
+Get:14 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-3 [411 kB]
+Get:15 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-3 [2023 kB]
+Get:16 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.1.1 [552 kB]
+Get:19 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.92 [1268 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 10.2 MB in 2s (4652 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10134 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_mipsel.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_mipsel.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_mipsel.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_mipsel.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_mipsel.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5_mipsel.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mipsel.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_mipsel.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_mipsel.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_mipsel.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mipsel.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_mipsel.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_mipsel.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.33-rc7 mipsel (mips64)
+Toolchain package versions: libc6-dev_2.11.2-6 dpkg-dev_1.15.8.5 linux-libc-dev_2.6.32-23 gcc-4.4_4.4.5-2 g++-4.4_4.4.5-2 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-2 libstdc++6_4.4.5-2
+Package versions: apt_0.8.6 autotools-dev_20100122.1 base-files_5.9 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-1 cpp-4.4_4.4.5-2 dash_0.5.5.1-7 debconf_1.5.36 debconf-i18n_1.5.36 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.1 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1 g++_4:4.4.5-1 g++-4.4_4.4.5-2 gcc_4:4.4.5-1 gcc-4.4_4.4.5-2 gcc-4.4-base_4.4.5-2 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 initscripts_2.88dsf-12 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.3 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-6 libc-dev-bin_2.11.2-6 libc6_2.11.2-6 libc6-dev_2.11.2-6 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-9 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.5 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-2 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-2 liblocale-gettext-perl_1.05-6 liblzma2_4.999.9beta+20100810-1 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-4 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.1-6 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-2 libstdc++6-4.4-dev_4.4.5-2 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-3.3 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-23 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-15 perl-base_5.10.1-15 perl-modules_5.10.1-15 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-7 sensible-utils_0.0.4 sudo_1.7.4p4-4 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-3 tzdata_2010m-1 util-linux_2.17.2-3.3 xz-utils_4.999.9beta+20100810-1 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture mipsel
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) insteadmake[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/./configure --build=mipsel-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... mipsel-unknown-linux-gnu
+checking host system type... mipsel-unknown-linux-gnu
+checking target system type... mipsel-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o:/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org> >../clustalw_2.1+lgpl-2_mipsel.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2102
+
+clustalw_2.1+lgpl-2_mipsel.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: mipsel
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: mipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 0489938c112e9e2cb4395e31875326b2bd832b13 350636 clustalw_2.1+lgpl-2_mipsel.deb
+Checksums-Sha256:
+ 17db9d46d860211ea638ea2f737e56fa4d59a78880edf9087224e4d35a771b88 350636 clustalw_2.1+lgpl-2_mipsel.deb
+Files:
+ b98e826d583f9284df218db30378c38c 350636 science optional clustalw_2.1+lgpl-2_mipsel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_mipsel.deb
+──────────────────────────────
+
+ new debian package, version 2.0.
+ size 350636 bytes: control archive= 1411 bytes.
+ 1090 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: mipsel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 1092
+ Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 21:02 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/bin/
+-rwxr-xr-x root/root 962120 2011-02-11 21:02 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-7b7eb9e6-5ba9-4b54-834e-c4bcf86a690c/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2102
+Build needed 00:12:42, 22424k disc space
+
diff --git a/mipsel.log b/mipsel.log
new file mode 100644
index 0000000..8f304e2
--- /dev/null
+++ b/mipsel.log
@@ -0,0 +1,673 @@
+From buildd at monteverdi.ayous.org Fri Feb 11 21:16:09 2011
+Return-path: <buildd at monteverdi.ayous.org>
+Received: from monteverdi.ayous.org ([2001:a60:f006:deb:20a:1ff:fe00:987])
+ by grieg.debian.org with esmtp (Exim 4.69)
+ (envelope-from <buildd at monteverdi.ayous.org>) id 1Po0LX-0004v9-MD
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 21:16:09 +0000
+Received: from buildd by monteverdi.ayous.org with local (Exim 4.69)
+ (envelope-from <buildd at monteverdi.ayous.org>)
+ id 1Po08t-000671-L6; Fri, 11 Feb 2011 21:03:03 +0000
+From: buildd on monteverdi <buildd at monteverdi.ayous.org>
+To: aba+buildd_monteverdi at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on mipsel (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Po08t-000671-L6 at monteverdi.ayous.org>
+Date: Fri, 11 Feb 2011 21:03:03 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on monteverdi.ayous.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (mipsel) 11 Feb 2011 20:50 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: mipsel
+Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-7b7eb9e6-5ba9-4b54-834e-c4bcf86a690c/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ
+Start Time: 20110211-2050
+Get:1 http://incoming.debian.org unstable Release.gpg [835 B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:2 http://mirror.ayous.org unstable Release.gpg [835 B]
+Ign http://mirror.ayous.org/debian/ unstable/contrib Translation-en
+Ign http://mirror.ayous.org/debian/ unstable/main Translation-en
+Get:3 http://mirror.ayous.org unstable Release [104 kB]
+Ign http://mirror.ayous.org unstable/main Sources
+Ign http://mirror.ayous.org unstable/contrib Sources
+Ign http://mirror.ayous.org unstable/non-free Sources
+Ign http://mirror.ayous.org unstable/main mipsel Packages
+Ign http://mirror.ayous.org unstable/contrib mipsel Packages
+Get:4 http://mirror.ayous.org unstable/main Sources [5348 kB]
+Get:5 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:6 http://mirror.ayous.org unstable/contrib Sources [46.7 kB]
+Get:7 http://incoming.debian.org unstable Release [104 kB]
+Get:8 http://mirror.ayous.org unstable/non-free Sources [100 kB]
+Get:9 http://mirror.ayous.org unstable/main mipsel Packages [8938 kB]
+Get:10 http://incoming.debian.org Release [1604 B]
+Ign http://incoming.debian.org unstable/main Sources
+Ign http://incoming.debian.org unstable/contrib Sources
+Ign http://incoming.debian.org unstable/non-free Sources
+Ign http://incoming.debian.org unstable/main mipsel Packages
+Ign http://incoming.debian.org unstable/contrib mipsel Packages
+Get:11 http://incoming.debian.org unstable/main Sources [5348 kB]
+Get:12 http://incoming.debian.org unstable/contrib Sources [46.7 kB]
+Get:13 http://incoming.debian.org unstable/non-free Sources [100 kB]
+Get:14 http://incoming.debian.org unstable/main mipsel Packages [8938 kB]
+Get:15 http://mirror.ayous.org unstable/contrib mipsel Packages [61.6 kB]
+Get:16 http://incoming.debian.org unstable/contrib mipsel Packages [61.6 kB]
+Ign http://incoming.debian.org Sources
+Ign http://incoming.debian.org Packages
+Get:17 http://incoming.debian.org Sources [41.3 kB]
+Get:18 http://incoming.debian.org Packages [734 kB]
+Fetched 30.0 MB in 42s (712 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 4s (74.9 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 60 not upgraded.
+Need to get 10.2 MB of archives.
+After this operation, 30.8 MB of additional disk space will be used.
+Get:1 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.2 [207 kB]
+Get:2 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.21-4 [1190 kB]
+Get:3 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.1.0-1 [34.5 kB]
+Get:4 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.5.9-4 [980 kB]
+Get:5 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.04-5 [238 kB]
+Get:6 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.04-5 [49.5 kB]
+Get:7 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-3 [152 kB]
+Get:8 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-2 [261 kB]
+Get:9 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-2 [833 kB]
+Get:10 http://mirror.ayous.org/debian/ unstable/main autotools-dev all 20100122.1 [71.9 kB]
+Get:11 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get:12 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.28.0-1 [1491 kB]
+Get:13 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
+Get:14 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-3 [411 kB]
+Get:15 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-3 [2023 kB]
+Get:16 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.1.1 [552 kB]
+Get:19 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.92 [1268 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 10.2 MB in 2s (4652 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10134 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_mipsel.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_mipsel.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_mipsel.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_mipsel.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_mipsel.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5_mipsel.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mipsel.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_mipsel.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_mipsel.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_mipsel.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mipsel.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_mipsel.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_mipsel.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.33-rc7 mipsel (mips64)
+Toolchain package versions: libc6-dev_2.11.2-6 dpkg-dev_1.15.8.5 linux-libc-dev_2.6.32-23 gcc-4.4_4.4.5-2 g++-4.4_4.4.5-2 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-2 libstdc++6_4.4.5-2
+Package versions: apt_0.8.6 autotools-dev_20100122.1 base-files_5.9 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-1 cpp-4.4_4.4.5-2 dash_0.5.5.1-7 debconf_1.5.36 debconf-i18n_1.5.36 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.1 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1 g++_4:4.4.5-1 g++-4.4_4.4.5-2 gcc_4:4.4.5-1 gcc-4.4_4.4.5-2 gcc-4.4-base_4.4.5-2 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 initscripts_2.88dsf-12 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.3 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-6 libc-dev-bin_2.11.2-6 libc6_2.11.2-6 libc6-dev_2.11.2-6 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-9 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.5 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-2 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-2 liblocale-gettext-perl_1.05-6 liblzma2_4.999.9beta+20100810-1 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-4 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.1-6 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-2 libstdc++6-4.4-dev_4.4.5-2 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-3.3 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-23 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-15 perl-base_5.10.1-15 perl-modules_5.10.1-15 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-7 sensible-utils_0.0.4 sudo_1.7.4p4-4 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-3 tzdata_2010m-1 util-linux_2.17.2-3.3 xz-utils_4.999.9beta+20100810-1 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture mipsel
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) insteadmake[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/./configure --build=mipsel-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... mipsel-unknown-linux-gnu
+checking host system type... mipsel-unknown-linux-gnu
+checking target system type... mipsel-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o:/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org> >../clustalw_2.1+lgpl-2_mipsel.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2102
+
+clustalw_2.1+lgpl-2_mipsel.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: mipsel
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: mipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 0489938c112e9e2cb4395e31875326b2bd832b13 350636 clustalw_2.1+lgpl-2_mipsel.deb
+Checksums-Sha256:
+ 17db9d46d860211ea638ea2f737e56fa4d59a78880edf9087224e4d35a771b88 350636 clustalw_2.1+lgpl-2_mipsel.deb
+Files:
+ b98e826d583f9284df218db30378c38c 350636 science optional clustalw_2.1+lgpl-2_mipsel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_mipsel.deb
+──────────────────────────────
+
+ new debian package, version 2.0.
+ size 350636 bytes: control archive= 1411 bytes.
+ 1090 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: mipsel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 1092
+ Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 21:02 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 21:02 ./usr/bin/
+-rwxr-xr-x root/root 962120 2011-02-11 21:02 ./usr/bin/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-7b7eb9e6-5ba9-4b54-834e-c4bcf86a690c/build/buildd-clustalw_2.1+lgpl-2-mipsel-vutGMZ
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2102
+Build needed 00:12:42, 22424k disc space
+
diff --git a/powerpc.log b/powerpc.log
new file mode 100644
index 0000000..1bffc0f
--- /dev/null
+++ b/powerpc.log
@@ -0,0 +1,673 @@
+From buildd at porpora.debian.org Fri Feb 11 20:51:14 2011
+Return-path: <buildd at porpora.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at porpora.debian.org>)
+ id 1PnzxR-0002WY-R8
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:51:14 +0000
+Received: from porpora.ynic.york.ac.uk ([144.32.168.78]
+ helo=porpora.debian.org)
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=porpora.debian.org, EMAIL=hostmaster at porpora.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at porpora.debian.org>)
+ id 1PnzxQ-0002Yo-2m; Fri, 11 Feb 2011 20:51:12 +0000
+Received: from buildd by porpora.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at porpora.debian.org>)
+ id 1PnzxP-0005uc-7l; Fri, 11 Feb 2011 20:51:11 +0000
+From: buildd on porpora <buildd at porpora.debian.org>
+To: phil+buildd at philkern.de,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on powerpc (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1PnzxP-0005uc-7l at porpora.debian.org>
+Date: Fri, 11 Feb 2011 20:51:11 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on porpora.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (powerpc) 11 Feb 2011 20:46 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: powerpc
+Chroot Build Dir: /var/lib/schroot/mount/sid-powerpc-sbuild-73195c8c-dd42-4bc5-9ad2-077954f7802d/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx
+Start Time: 20110211-2046
+Get:1 http://ftp.uk.debian.org unstable Release.gpg [835 B]
+Ign http://ftp.uk.debian.org/debian/ unstable/contrib Translation-en
+Ign http://ftp.uk.debian.org/debian/ unstable/main Translation-en
+Get:2 http://ftp.uk.debian.org unstable Release [104 kB]
+Get:3 http://incoming.debian.org unstable Release.gpg [835 B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:4 http://ftp.uk.debian.org unstable/main Sources [4164 kB]
+Get:5 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:6 http://incoming.debian.org unstable Release [104 kB]
+Get:7 http://incoming.debian.org Release [1604 B]
+Get:8 http://incoming.debian.org unstable/main Sources [4164 kB]
+Get:9 http://ftp.uk.debian.org unstable/contrib Sources [39.1 kB]
+Get:10 http://ftp.uk.debian.org unstable/non-free Sources [84.0 kB]
+Get:11 http://ftp.uk.debian.org unstable/main powerpc Packages [6926 kB]
+Get:12 http://ftp.uk.debian.org unstable/contrib powerpc Packages [50.8 kB]
+Get:13 http://incoming.debian.org unstable/contrib Sources [39.1 kB]
+Get:14 http://incoming.debian.org unstable/non-free Sources [84.0 kB]
+Get:15 http://incoming.debian.org unstable/main powerpc Packages [6905 kB]
+Get:16 http://incoming.debian.org unstable/contrib powerpc Packages [50.8 kB]
+Get:17 http://incoming.debian.org Sources [35.7 kB]
+Get:18 http://incoming.debian.org Packages [529 kB]
+Fetched 23.3 MB in 39s (592 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 1s (265 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 25 not upgraded.
+Need to get 10.4 MB of archives.
+After this operation, 30.0 MB of additional disk space will be used.
+Get:1 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils powerpc 8.2.2 [209 kB]
+Get:2 http://ftp.uk.debian.org/debian/ unstable/main groff-base powerpc 1.21-4 [1168 kB]
+Get:3 http://ftp.uk.debian.org/debian/ unstable/main libpipeline1 powerpc 1.1.0-1 [36.9 kB]
+Get:4 http://ftp.uk.debian.org/debian/ unstable/main man-db powerpc 2.5.9-4 [1001 kB]
+Get:5 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 powerpc 5.04-5 [241 kB]
+Get:6 http://ftp.uk.debian.org/debian/ unstable/main file powerpc 5.04-5 [49.9 kB]
+Get:7 http://ftp.uk.debian.org/debian/ unstable/main gettext-base powerpc 0.18.1.1-3 [141 kB]
+Get:8 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 powerpc 8.12-2 [257 kB]
+Get:9 http://ftp.uk.debian.org/debian/ unstable/main libxml2 powerpc 2.7.8.dfsg-2 [849 kB]
+Get:10 http://ftp.uk.debian.org/debian/ unstable/main autotools-dev all 20100122.1 [71.9 kB]
+Get:11 http://ftp.uk.debian.org/debian/ unstable/main html2text powerpc 1.3.2a-15 [105 kB]
+Get:12 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 powerpc 2.28.0-1 [1590 kB]
+Get:13 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 powerpc 0.6.2-1 [128 kB]
+Get:14 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 powerpc 0.9.3-3 [422 kB]
+Get:15 http://ftp.uk.debian.org/debian/ unstable/main gettext powerpc 0.18.1.1-3 [2046 kB]
+Get:16 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.1.1 [552 kB]
+Get:19 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.92 [1268 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 10.4 MB in 4s (2293 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10161 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_powerpc.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_powerpc.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_powerpc.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_powerpc.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_powerpc.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5_powerpc.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_powerpc.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_powerpc.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_powerpc.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_powerpc.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_powerpc.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_powerpc.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_powerpc.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_powerpc.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.26-2-powerpc64 powerpc (ppc64)
+Toolchain package versions: libc6-dev_2.11.2-7 dpkg-dev_1.15.8.8 linux-libc-dev_2.6.32-30 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: apt_0.8.10 autotools-dev_20100122.1 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-6 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6_2.11.2-7 libc6-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-11 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-10 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-6 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-6 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-6 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture powerpc
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/./configure --build=powerpc-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... powerpc-unknown-linux-gnu
+checking host system type... powerpc-unknown-linux-gnu
+checking target system type... powerpc-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_powerpc.deb'.
+ dpkg-genchanges -B -mpowerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org> >../clustalw_2.1+lgpl-2_powerpc.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2051
+
+clustalw_2.1+lgpl-2_powerpc.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: powerpc
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: powerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ baf6370e8101bae0dfcec53f54d20b479e597266 357218 clustalw_2.1+lgpl-2_powerpc.deb
+Checksums-Sha256:
+ 92def87b3f739348d303e55fc2466560715002f46a3795e300aefdf9d35d433d 357218 clustalw_2.1+lgpl-2_powerpc.deb
+Files:
+ 2fcd235df2c42e433f5bbc0f055ac29a 357218 science optional clustalw_2.1+lgpl-2_powerpc.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_powerpc.deb
+───────────────────────────────
+
+ new debian package, version 2.0.
+ size 357218 bytes: control archive= 1406 bytes.
+ 1090 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: powerpc
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 876
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/bin/
+-rwxr-xr-x root/root 738600 2011-02-11 20:51 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 20:51 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-11 20:51 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-powerpc-sbuild-73195c8c-dd42-4bc5-9ad2-077954f7802d/build/buildd-clustalw_2.1+lgpl-2-powerpc-gdTMkx
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2051
+Build needed 00:04:21, 23192k disc space
+
diff --git a/s390.log b/s390.log
new file mode 100644
index 0000000..6795809
--- /dev/null
+++ b/s390.log
@@ -0,0 +1,673 @@
+From buildd at zandonai.debian.org Fri Feb 11 20:48:51 2011
+Return-path: <buildd at zandonai.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at zandonai.debian.org>)
+ id 1Pnzv9-0002Dq-L6
+ for logs at buildd.debian.org; Fri, 11 Feb 2011 20:48:51 +0000
+Received: from zandonai.debian.org ([80.245.147.46])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=zandonai.debian.org,
+ EMAIL=hostmaster at zandonai.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at zandonai.debian.org>)
+ id 1Pnzv8-0000xt-PG; Fri, 11 Feb 2011 20:48:50 +0000
+Received: from buildd by zandonai.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at zandonai.debian.org>)
+ id 1Pnzv7-0001qj-TR; Fri, 11 Feb 2011 20:48:49 +0000
+From: buildd on zandonai <buildd at zandonai.debian.org>
+To: phil+buildd at philkern.de,logs at buildd.debian.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on s390 (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1Pnzv7-0001qj-TR at zandonai.debian.org>
+Date: Fri, 11 Feb 2011 20:48:49 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on zandonai.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (s390) 11 Feb 2011 20:46 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: s390
+Chroot Build Dir: /var/lib/schroot/mount/sid-s390-sbuild-ced8e664-e689-4d31-92f4-dfa244605940/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2
+Start Time: 20110211-2046
+Get:1 http://ftp.de.debian.org unstable Release.gpg [835 B]
+Ign http://ftp.de.debian.org/debian/ unstable/contrib Translation-en
+Ign http://ftp.de.debian.org/debian/ unstable/main Translation-en
+Get:2 http://ftp.de.debian.org unstable Release [104 kB]
+Get:3 http://ftp.de.debian.org unstable/main Sources [4164 kB]
+Get:4 http://incoming.debian.org unstable Release.gpg [835 B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:5 http://incoming.debian.org Release.gpg [835 B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:6 http://incoming.debian.org unstable Release [104 kB]
+Get:7 http://incoming.debian.org Release [1604 B]
+Get:8 http://incoming.debian.org unstable/main Sources [4164 kB]
+Get:9 http://ftp.de.debian.org unstable/contrib Sources [39.1 kB]
+Get:10 http://ftp.de.debian.org unstable/non-free Sources [84.0 kB]
+Get:11 http://ftp.de.debian.org unstable/main s390 Packages [6820 kB]
+Get:12 http://ftp.de.debian.org unstable/contrib s390 Packages [49.6 kB]
+Get:13 http://incoming.debian.org unstable/contrib Sources [39.1 kB]
+Get:14 http://incoming.debian.org unstable/non-free Sources [84.0 kB]
+Get:15 http://incoming.debian.org unstable/main s390 Packages [6830 kB]
+Get:16 http://incoming.debian.org unstable/contrib s390 Packages [49.6 kB]
+Get:17 http://incoming.debian.org Sources [35.7 kB]
+Get:18 http://incoming.debian.org Packages [529 kB]
+Fetched 23.1 MB in 31s (723 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (dsc) [1991 B]
+Get:2 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (tar) [351 kB]
+Get:3 http://incoming.debian.org/debian/ unstable/main clustalw 2.1+lgpl-2 (diff) [20.5 kB]
+Fetched 373 kB in 1s (235 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 24 not upgraded.
+Need to get 10.5 MB of archives.
+After this operation, 29.5 MB of additional disk space will be used.
+Get:1 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.2 [208 kB]
+Get:2 http://ftp.de.debian.org/debian/ unstable/main groff-base s390 1.21-4 [1158 kB]
+Get:3 http://ftp.de.debian.org/debian/ unstable/main libpipeline1 s390 1.1.0-1 [38.0 kB]
+Get:4 http://ftp.de.debian.org/debian/ unstable/main man-db s390 2.5.9-4 [1015 kB]
+Get:5 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.04-5 [243 kB]
+Get:6 http://ftp.de.debian.org/debian/ unstable/main file s390 5.04-5 [50.0 kB]
+Get:7 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-3 [142 kB]
+Get:8 http://ftp.de.debian.org/debian/ unstable/main libpcre3 s390 8.12-2 [262 kB]
+Get:9 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-2 [873 kB]
+Get:10 http://ftp.de.debian.org/debian/ unstable/main autotools-dev all 20100122.1 [71.9 kB]
+Get:11 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
+Get:12 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.28.0-1 [1626 kB]
+Get:13 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-1 [128 kB]
+Get:14 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-3 [431 kB]
+Get:15 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-3 [2068 kB]
+Get:16 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.1.1 [552 kB]
+Get:19 http://ftp.de.debian.org/debian/ unstable/main cdbs all 0.4.92 [1268 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 10.5 MB in 2s (3567 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10088 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_s390.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_s390.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_s390.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_s390.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_s390.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_s390.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_s390.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_s390.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_s390.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_s390.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_s390.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_s390.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_s390.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_s390.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.32-bpo.5-s390x s390 (s390x)
+Toolchain package versions: libc6-dev_2.11.2-7 dpkg-dev_1.15.8.8 linux-libc-dev_2.6.32-30 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.4.5-10
+Package versions: apt_0.8.10 autotools-dev_20100122.1 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-6 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6_2.11.2-7 libc6-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-10 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-6 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-6 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-6 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture s390
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/./configure --build=s390-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... s390-ibm-linux-gnu
+checking host system type... s390-ibm-linux-gnu
+checking target system type... s390-ibm-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/usr/include/c++/4.4/bits/stl_vector.h:114: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_s390.deb'.
+ dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../clustalw_2.1+lgpl-2_s390.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110211-2048
+
+clustalw_2.1+lgpl-2_s390.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: s390
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: s390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ 9e855c62edf64d1ecf0ee40ffbd9ac1654ad44c5 332258 clustalw_2.1+lgpl-2_s390.deb
+Checksums-Sha256:
+ 9b28c6d30ceacc60a25ec2d0f9f97ba3a248e185042130eded060ca39fdb7eaf 332258 clustalw_2.1+lgpl-2_s390.deb
+Files:
+ 2cfddbb823c996a97a116bf6056595f8 332258 science optional clustalw_2.1+lgpl-2_s390.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_s390.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 332258 bytes: control archive= 1402 bytes.
+ 1087 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: s390
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 828
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/bin/
+-rwxr-xr-x root/root 689148 2011-02-11 20:48 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-11 20:48 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+drwxr-xr-x root/root 0 2011-02-11 20:48 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-s390-sbuild-ced8e664-e689-4d31-92f4-dfa244605940/build/buildd-clustalw_2.1+lgpl-2-s390-dAk7E2
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110211-2048
+Build needed 00:02:06, 24968k disc space
+
diff --git a/sparc.log b/sparc.log
new file mode 100644
index 0000000..f16fdcd
--- /dev/null
+++ b/sparc.log
@@ -0,0 +1,673 @@
+From buildd at schroeder.debian.org Sat Feb 12 13:39:42 2011
+Return-path: <buildd at schroeder.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at schroeder.debian.org>)
+ id 1PoFhO-0000zS-3Y
+ for logs at buildd.debian.org; Sat, 12 Feb 2011 13:39:42 +0000
+Received: from schroeder.debian.org ([193.198.184.11])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=schroeder.debian.org,
+ EMAIL=hostmaster at schroeder.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.69) (envelope-from <buildd at schroeder.debian.org>)
+ id 1PoFhM-0000qS-9m; Sat, 12 Feb 2011 13:39:40 +0000
+Received: from buildd by schroeder.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at schroeder.debian.org>)
+ id 1PoFhL-0006Et-7j; Sat, 12 Feb 2011 13:39:39 +0000
+From: buildd on schroeder <buildd at schroeder.debian.org>
+To: logs at buildd.debian.org,kibi at debian-ports.org
+Subject: Log for successful build of clustalw_2.1+lgpl-2 on sparc (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1PoFhL-0006Et-7j at schroeder.debian.org>
+Date: Sat, 12 Feb 2011 13:39:39 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on schroeder.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ clustalw 2.1+lgpl-2 (sparc) 12 Feb 2011 13:33 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: clustalw
+Version: 2.1+lgpl-2
+Architecture: sparc
+Chroot Build Dir: /var/lib/schroot/mount/sid-sparc-sbuild-8c563c50-fe0a-486e-9501-8dd65e71e171/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ
+Start Time: 20110212-1333
+Get:1 http://ftp.carnet.hr unstable Release.gpg [835B]
+Get:2 http://incoming.debian.org unstable Release.gpg [835B]
+Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
+Ign http://incoming.debian.org/debian/ unstable/main Translation-en
+Get:3 http://incoming.debian.org Release.gpg [835B]
+Ign http://incoming.debian.org/buildd-unstable/ Translation-en
+Get:4 http://incoming.debian.org unstable Release [104kB]
+Ign http://ftp.carnet.hr/debian/ unstable/contrib Translation-en
+Ign http://ftp.carnet.hr/debian/ unstable/main Translation-en
+Get:5 http://incoming.debian.org Release [1604B]
+Get:6 http://ftp.carnet.hr unstable Release [104kB]
+Get:7 http://incoming.debian.org unstable/main Sources [4164kB]
+Get:8 http://ftp.carnet.hr unstable/main Sources [4164kB]
+Get:9 http://ftp.carnet.hr unstable/contrib Sources [39.1kB]
+Get:10 http://ftp.carnet.hr unstable/non-free Sources [84.0kB]
+Get:11 http://ftp.carnet.hr unstable/main sparc Packages [6858kB]
+Get:12 http://ftp.carnet.hr unstable/contrib sparc Packages [50.7kB]
+Get:13 http://incoming.debian.org unstable/contrib Sources [39.1kB]
+Get:14 http://incoming.debian.org unstable/non-free Sources [84.0kB]
+Get:15 http://incoming.debian.org unstable/main sparc Packages [6858kB]
+Get:16 http://incoming.debian.org unstable/contrib sparc Packages [50.7kB]
+Get:17 http://incoming.debian.org Sources [32.3kB]
+Get:18 http://incoming.debian.org Packages [385kB]
+Fetched 23.0MB in 27s (851kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'clustalw' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/clustalw.git
+Need to get 373kB of source archives.
+Get:1 http://ftp.carnet.hr/debian/ unstable/main clustalw 2.1+lgpl-2 (dsc) [1991B]
+Get:2 http://ftp.carnet.hr/debian/ unstable/main clustalw 2.1+lgpl-2 (tar) [351kB]
+Get:3 http://ftp.carnet.hr/debian/ unstable/main clustalw 2.1+lgpl-2 (diff) [20.5kB]
+Fetched 373kB in 0s (378kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8), cdbs, autotools-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+debhelper: missing
+Using default version 8.1.1
+cdbs: missing
+autotools-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: debhelper cdbs autotools-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ autotools-dev bsdmainutils cdbs debhelper file gettext gettext-base
+ groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1
+ libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf
+0 upgraded, 19 newly installed, 0 to remove and 65 not upgraded.
+Need to get 10.3MB of archives.
+After this operation, 29.3MB of additional disk space will be used.
+Get:1 http://ftp.carnet.hr/debian/ unstable/main bsdmainutils sparc 8.2.2 [205kB]
+Get:2 http://ftp.carnet.hr/debian/ unstable/main groff-base sparc 1.21-4 [1155kB]
+Get:3 http://ftp.carnet.hr/debian/ unstable/main libpipeline1 sparc 1.1.0-1 [35.0kB]
+Get:4 http://ftp.carnet.hr/debian/ unstable/main man-db sparc 2.5.9-4 [1007kB]
+Get:5 http://ftp.carnet.hr/debian/ unstable/main libmagic1 sparc 5.04-5 [239kB]
+Get:6 http://ftp.carnet.hr/debian/ unstable/main file sparc 5.04-5 [49.5kB]
+Get:7 http://ftp.carnet.hr/debian/ unstable/main gettext-base sparc 0.18.1.1-3 [140kB]
+Get:8 http://ftp.carnet.hr/debian/ unstable/main libpcre3 sparc 8.12-2 [265kB]
+Get:9 http://ftp.carnet.hr/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-2 [840kB]
+Get:10 http://ftp.carnet.hr/debian/ unstable/main autotools-dev all 20100122.1 [71.9kB]
+Get:11 http://ftp.carnet.hr/debian/ unstable/main html2text sparc 1.3.2a-15 [100kB]
+Get:12 http://ftp.carnet.hr/debian/ unstable/main libglib2.0-0 sparc 2.28.0-1 [1544kB]
+Get:13 http://ftp.carnet.hr/debian/ unstable/main libcroco3 sparc 0.6.2-1 [119kB]
+Get:14 http://ftp.carnet.hr/debian/ unstable/main libunistring0 sparc 0.9.3-3 [424kB]
+Get:15 http://ftp.carnet.hr/debian/ unstable/main gettext sparc 0.18.1.1-3 [2006kB]
+Get:16 http://ftp.carnet.hr/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8kB]
+Get:17 http://ftp.carnet.hr/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223kB]
+Get:18 http://ftp.carnet.hr/debian/ unstable/main debhelper all 8.1.1 [552kB]
+Get:19 http://ftp.carnet.hr/debian/ unstable/main cdbs all 0.4.92 [1268kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 10.3MB in 7s (1339kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10427 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_sparc.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-4_sparc.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_sparc.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.9-4_sparc.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_sparc.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_sparc.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_sparc.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-2_sparc.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_sparc.deb) ...
+Selecting previously deselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20100122.1_all.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_sparc.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.0-1_sparc.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_sparc.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_sparc.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_sparc.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.1_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+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 groff-base (1.21-4) ...
+Setting up libpipeline1 (1.1.0-1) ...
+Setting up man-db (2.5.9-4) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-2) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up autotools-dev (20100122.1) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.0-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.1) ...
+Setting up cdbs (0.4.92) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.32-bpo.5-sparc64-smp sparc (sparc64)
+Toolchain package versions: libc6-dev_2.11.2-6 dpkg-dev_1.15.8.5 linux-libc-dev_2.6.32-23 gcc-4.4_4.4.4-15 g++-4.4_4.4.4-15 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.4-15 libstdc++6_4.4.4-15
+Package versions: apt_0.8.5 autotools-dev_20100122.1 base-files_5.9 base-passwd_3.5.22+b1 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.2 bsdutils_1:2.17.2-3.2 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.4-2 cpp-4.4_4.4.4-15 dash_0.5.5.1-7 debconf_1.5.35 debconf-i18n_1.5.35 debfoster_2.7-1.1 debhelper_8.1.1 debian-archive-keyring_2010.08.28 debianutils_3.4.1 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.4-2 g++-4.4_4.4.4-15 gcc_4:4.4.4-2 gcc-4.4_4.4.4-15 gcc-4.4-base_4.4.4-15 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 initscripts_2.88dsf-12 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.2 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-6 libc-dev-bin_2.11.2-6 libc6_2.11.2-6 libc6-dev_2.11.2-6 libc6-dev-sparc64_2.11.2-6 libc6-sparc64_2.11.2-6 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-9 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.5 libgc1c2_1:6.8-1.2+b1 libgcc1_1:4.4.4-15 libgdbm3_1.8.3-9+b1 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.4-15 liblocale-gettext-perl_1.05-6+b1 liblzma2_4.999.9beta+20100810-1 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-3 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.1-6 libpcre3_8.12-2 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libss2_1.41.12-2 libstdc++6_4.4.4-15 libstdc++6-4.4-dev_4.4.4-15 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-3.2 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-23 login_1:4.1.4.2+svn3283-1 lsb-base_3.2-24 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15+b1 mount_2.17.2-3.2 ncurses-base_5.7+20100313-3 ncurses-bin_5.7+20100313-3 netbase_4.42 passwd_1:4.1.4.2+svn3283-1 patch_2.6-3 perl_5.10.1-14 perl-base_5.10.1-14 perl-modules_5.10.1-14 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-7 sensible-utils_0.0.4 sudo_1.7.4p4-3 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-3 tzdata_2010l-1 util-linux_2.17.2-3.2 xz-utils_4.999.9beta+20100810-1 zlib1g_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Mon Feb 7 07:04:34 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./clustalw_2.1+lgpl-2.dsc
+dpkg-source: info: extracting clustalw in clustalw-2.1+lgpl
+dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz
+dpkg-source: info: unpacking clustalw_2.1+lgpl-2.debian.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
+dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
+dpkg-buildpackage: source package clustalw
+dpkg-buildpackage: source version 2.1+lgpl-2
+ dpkg-source --before-build clustalw-2.1+lgpl
+dpkg-buildpackage: host architecture sparc
+ /usr/bin/fakeroot debian/rules clean
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+/usr/bin/make -f debian/rules reverse-config
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "reverse-patches" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+for dir in debian/patches ; do \
+ rm -f $dir/*.log ; \
+ done
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . -k distclean
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[1]: *** No rule to make target `distclean'.
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make: [makefile-clean] Error 2 (ignored)
+rm -f debian/stamp-autotools
+rmdir --ignore-fail-on-non-empty .
+rmdir: failed to remove `.': Invalid argument
+make: [makefile-clean] Error 1 (ignored)
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+rm -f debian/stamp-autotools-files
+dh_clean
+ debian/rules build
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+for i in ./config.guess ./config.sub ; do \
+ if test -e $i.cdbs-orig ; then \
+ mv $i.cdbs-orig $i ; \
+ fi ; \
+ done
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
+patches:
+if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
+if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
+ /usr/bin/make -f debian/rules update-config ; \
+ fi
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+touch debian/stamp-autotools-files
+chmod a+x /build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/./configure
+mkdir -p .
+cd . && CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" /build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/./configure --build=sparc-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/clustalw" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+checking build system type... sparc-unknown-linux-gnu
+checking host system type... sparc-unknown-linux-gnu
+checking target system type... sparc-unknown-linux-gnu
+building for linux-gnu
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make sets $(MAKE)... (cached) yes
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking how to run the C++ preprocessor... g++ -E
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... no
+checking for an ANSI C-conforming const... yes
+checking for size_t... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating m4/Makefile
+config.status: creating src/Makefile
+config.status: creating src/clustalw_version.h
+config.status: creating src/config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+touch debian/stamp-autotools
+/usr/bin/make -C .
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+Making all in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/m4'
+make[2]: Nothing to be done for `all'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/m4'
+Making all in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+/usr/bin/make all-recursive
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
+g++ -DHAVE_CONFIG_H -I. -g -O2 -g -O2 -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
+g++ -g -O2 -g -O2 -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o
+Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
+/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[2]: Nothing to be done for `all-am'.
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+if test -e /usr/share/misc/config.guess ; then \
+ for i in ./config.guess ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.guess $i ; \
+ fi ; \
+ done ; \
+ fi
+if test -e /usr/share/misc/config.sub ; then \
+ for i in ./config.sub ; do \
+ if ! test -e $i.cdbs-orig ; then \
+ mv $i $i.cdbs-orig ; \
+ cp --remove-destination /usr/share/misc/config.sub $i ; \
+ fi ; \
+ done ; \
+ fi
+DEB_MAKE_CHECK_TARGET unset, not running checks
+/usr/bin/make -C . install DESTDIR=/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw/
+make[1]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+Making install in m4
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/m4'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/m4'
+make[3]: Nothing to be done for `install-exec-am'.
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw//usr/share/aclocal"
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/m4'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/m4'
+Making install in src
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[4]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+test -z "/usr/bin" || /bin/mkdir -p "/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw//usr/bin"
+ /usr/bin/install -c clustalw2 '/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw//usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/src'
+make[2]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[3]: Entering directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[3]: Nothing to be done for `install-exec-am'.
+make[3]: Nothing to be done for `install-data-am'.
+make[3]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[2]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+make[1]: Leaving directory `/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl'
+touch debian/stamp-makefile-install
+Adding cdbs dependencies to debian/clustalw.substvars
+dh_installdirs -pclustalw
+# We have to ask upstream if it is importnat for them that the binary is named clustalw2
+mv /build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw2 /build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw/usr/bin/clustalw
+# That is a bit ugly and should be better investigated.
+rmdir /build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ/clustalw-2.1+lgpl/debian/clustalw/usr/share/aclocal/
+dh_installdocs -pclustalw ./README
+dh_installexamples -pclustalw
+dh_installman -pclustalw
+dh_installinfo -pclustalw
+dh_installmenu -pclustalw
+dh_installcron -pclustalw
+dh_installinit -pclustalw
+dh_installdebconf -pclustalw
+dh_installemacsen -pclustalw
+dh_installcatalogs -pclustalw
+dh_installpam -pclustalw
+dh_installlogrotate -pclustalw
+dh_installlogcheck -pclustalw
+dh_installchangelogs -pclustalw debian/CHANGELOG.upstream
+dh_installudev -pclustalw
+dh_lintian -pclustalw
+dh_bugfiles -pclustalw
+dh_install -pclustalw
+dh_link -pclustalw
+dh_installmime -pclustalw
+dh_strip -pclustalw
+dh_compress -pclustalw
+dh_fixperms -pclustalw
+dh_makeshlibs -pclustalw
+dh_installdeb -pclustalw
+dh_perl -pclustalw
+dh_shlibdeps -pclustalw
+dh_gencontrol -pclustalw
+dh_md5sums -pclustalw
+dh_builddeb -pclustalw
+dpkg-deb: building package `clustalw' in `../clustalw_2.1+lgpl-2_sparc.deb'.
+ dpkg-genchanges -B -msparc Build Daemon (schroeder) <buildd_sparc-schroeder at buildd.debian.org> >../clustalw_2.1+lgpl-2_sparc.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build clustalw-2.1+lgpl
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110212-1339
+
+clustalw_2.1+lgpl-2_sparc.changes:
+Format: 1.8
+Date: Mon, 07 Feb 2011 12:08:53 +0900
+Source: clustalw
+Binary: clustalw
+Architecture: sparc
+Version: 2.1+lgpl-2
+Distribution: sid
+Urgency: low
+Maintainer: sparc Build Daemon (schroeder) <buildd_sparc-schroeder at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ clustalw - global multiple nucleotide or peptide sequence alignment
+Changes:
+ clustalw (2.1+lgpl-2) unstable; urgency=low
+ .
+ * Removed obsolete comment in debian/copyright.
+Checksums-Sha1:
+ b75fc8765dd25bd40f315f38ddaeaebcb0b106f6 336230 clustalw_2.1+lgpl-2_sparc.deb
+Checksums-Sha256:
+ 175613bdb99da2f2ca2a3778de1d8fd1f274de913865ebbad0d6d1d3e5d25080 336230 clustalw_2.1+lgpl-2_sparc.deb
+Files:
+ 49bc9c40cce4a8a5d145d0e29a4c721c 336230 science optional clustalw_2.1+lgpl-2_sparc.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+clustalw_2.1+lgpl-2_sparc.deb
+─────────────────────────────
+
+ new debian package, version 2.0.
+ size 336230 bytes: control archive= 1404 bytes.
+ 1088 bytes, 22 lines control
+ 948 bytes, 13 lines md5sums
+ 185 bytes, 7 lines * postinst #!/bin/sh
+ 160 bytes, 5 lines * postrm #!/bin/sh
+ Package: clustalw
+ Version: 2.1+lgpl-2
+ Architecture: sparc
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 852
+ Depends: libc6 (>= 2.6), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0)
+ Suggests: clustalx, seaview
+ Enhances: bioperl-run, emboss, t-coffee
+ Section: science
+ Priority: optional
+ Homepage: http://www.clustal.org/
+ Description: global multiple nucleotide or peptide sequence alignment
+ This program performs an alignment of multiple nucleotide or amino acid
+ sequences. It recognizes the format of input sequences and whether the
+ sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output
+ format may be selected from in various formats for multiple alignments such as
+ Phylip or FASTA. Clustal W is very well accepted.
+ .
+ The output of Clustal W can be edited manually but preferably with an
+ alignment editor like SeaView or within its companion Clustal X. When building
+ a model from your alignment, this can be applied for improved database
+ searches. The Debian package hmmer creates such in form of an HMM.
+
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/bin/
+-rwxr-xr-x root/root 719152 2011-02-12 13:39 ./usr/bin/clustalw
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/man/man1/
+-rw-r--r-- root/root 4184 2011-02-12 13:39 ./usr/share/man/man1/clustalw.1.gz
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/menu/
+-rw-r--r-- root/root 193 2011-02-07 03:05 ./usr/share/menu/clustalw
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/doc/clustalw/
+-rw-r--r-- root/root 3440 2011-02-07 03:05 ./usr/share/doc/clustalw/changelog.gz
+-rw-r--r-- root/root 2003 2011-02-07 03:08 ./usr/share/doc/clustalw/copyright
+-rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README
+-rw-r--r-- root/root 821 2011-02-07 03:05 ./usr/share/doc/clustalw/README.Debian
+-rw-r--r-- root/root 4779 2011-02-07 03:09 ./usr/share/doc/clustalw/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/doc/clustalw/examples/
+drwxr-xr-x root/root 0 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/
+-rw-r--r-- root/root 157 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/seq
+-rw-r--r-- root/root 552 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile
+-rw-r--r-- root/root 1013 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data
+-rw-r--r-- root/root 1007 2011-02-07 03:05 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data
+drwxr-xr-x root/root 0 2011-02-12 13:39 ./usr/share/clustalw/
+-rw-r--r-- root/root 33752 2010-11-12 16:53 ./usr/share/clustalw/clustalw_help
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-sparc-sbuild-8c563c50-fe0a-486e-9501-8dd65e71e171/build/buildd-clustalw_2.1+lgpl-2-sparc-F1d1SZ
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110212-1339
+Build needed 00:06:23, 22448k disc space
+
--
global multiple nucleotide or peptide sequence alignment
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