Sure I'll work on this today. On Mon, Sep 17, 2012 at 4:26 PM, Andreas Tille <andr...@an3as.eu> wrote: > Hi Carlos, > > could you merge this with your changes in Git? > > Kind regards > > Andreas. > > ----- Forwarded message from Alessandro -oggei- Ogier > <alessandro.og...@ieo.eu> ----- > > Date: Mon, 17 Sep 2012 13:42:59 +0200 > From: Alessandro -oggei- Ogier <alessandro.og...@ieo.eu> > To: Debian Bug Tracking System <sub...@bugs.debian.org> > Subject: Bug#687968: New upstream version > X-Debian-PR-Message: report 687968 > X-Debian-PR-Package: cufflinks > X-Debian-PR-Keywords: patch > X-Debian-PR-Source: cufflinks > X-Spam_score: -2.8 > > Package: cufflinks > Version: 1.3.0-2 > Severity: wishlist > Tags: patch > > Hi team, > > here at European Institute of Oncology we managed to upgrade > cufflinks packaging to 2.0.2 version (current stable), starting > from your good work. > Here is the changelog: > > * New upstream release > * Adding libeigen3-dev to Build-Depends > * Hardened build > * Fixed autoconf stuff (eigen-related) > * Parallel compile > > We attach the relevant patch, we would be glad if you could > consider to adopt and release new version in debian. > > Bests, > > ale > > -- System Information: > Debian Release: wheezy/sid > APT prefers stable-updates > APT policy: (500, 'stable-updates'), (500, 'unstable'), (500, 'testing'), > (500, 'stable'), (1, 'experimental') > Architecture: amd64 (x86_64) > > Kernel: Linux 3.2.0-3-amd64 (SMP w/4 CPU cores) > Locale: LANG=it_IT.UTF-8, LC_CTYPE=it_IT.UTF-8 (charmap=UTF-8) > Shell: /bin/sh linked to /bin/dash > > Versions of packages cufflinks depends on: > ii dpkg 1.16.8 > ii libboost-thread1.49.0 1.49.0-3.1 > ii libc6 2.13-35 > ii libgcc1 1:4.7.1-8 > ii libstdc++6 4.7.1-8 > ii python 2.7.3-2 > ii zlib1g 1:1.2.7.dfsg-13 > > cufflinks recommends no packages. > > cufflinks suggests no packages. > > -- no debconf information > > Index: packages/cufflinks/trunk/debian/control > =================================================================== > --- packages/cufflinks/trunk/debian/control (revision 38) > +++ packages/cufflinks/trunk/debian/control (revision 43) > @@ -8,5 +8,6 @@ > Charles Plessy <ple...@debian.org> > Build-Depends: debhelper (>= 8), autotools-dev, libboost-dev (>=1.38.0), > - libboost-thread-dev, libbam-dev (>=0.1.16), zlib1g-dev, dh-autoreconf, > python (>=2.6.6-3~) > + libboost-thread-dev, libbam-dev (>=0.1.16), zlib1g-dev, dh-autoreconf, > python (>=2.6.6-3~), > + hardening-wrapper, libeigen3-dev > Standards-Version: 3.9.3 > Homepage: http://cufflinks.cbcb.umd.edu/ > Index: packages/cufflinks/trunk/debian/changelog > =================================================================== > --- packages/cufflinks/trunk/debian/changelog (revision 38) > +++ packages/cufflinks/trunk/debian/changelog (revision 43) > @@ -1,2 +1,13 @@ > +cufflinks (2.0.2-0ieo1) unstable; urgency=low > + > + [ Alessandro -oggei- Ogier ] > + * New upstream release > + * Adding libeigen3-dev to Build-Depends > + * Hardened build > + * Fixed autoconf stuff (eigen-related) > + * Parallel compile > + > + -- oggei <og...@oggei.ieo> Mon, 17 Sep 2012 13:31:47 +0200 > + > cufflinks (1.3.0-2) unstable; urgency=low > > Index: packages/cufflinks/trunk/debian/patches/series > =================================================================== > --- packages/cufflinks/trunk/debian/patches/series (revision 38) > +++ packages/cufflinks/trunk/debian/patches/series (revision 43) > @@ -3,2 +3,3 @@ > 0003-fix_includes_path.patch > gcc-4.7.patch > +wrong-assumptions > Index: packages/cufflinks/trunk/debian/patches/wrong-assumptions > =================================================================== > --- packages/cufflinks/trunk/debian/patches/wrong-assumptions (revision 43) > +++ packages/cufflinks/trunk/debian/patches/wrong-assumptions (revision 43) > @@ -0,0 +1,32 @@ > +Description: wrong assumptions on user intelligence > + If I describe my eigen path to $dir, i don't really mean $dir/include > + . > + cufflinks (2.0.2-1) UNRELEASED; urgency=low > + . > + * New upstream release > +Author: oggei <og...@oggei.ieo> > + > +--- > +The information above should follow the Patch Tagging Guidelines, please > +checkout http://dep.debian.net/deps/dep3/ to learn about the format. Here > +are templates for supplementary fields that you might want to add: > + > +Origin: <vendor|upstream|other>, <url of original patch> > +Bug: <url in upstream bugtracker> > +Bug-Debian: http://bugs.debian.org/<bugnumber> > +Bug-Ubuntu: https://launchpad.net/bugs/<bugnumber> > +Forwarded: <no|not-needed|url proving that it has been forwarded> > +Reviewed-By: <name and email of someone who approved the patch> > +Last-Update: <YYYY-MM-DD> > + > +--- cufflinks-2.0.2.orig/ax_check_eigen.m4 > ++++ cufflinks-2.0.2/ax_check_eigen.m4 > +@@ -50,7 +50,7 @@ succeeded=no > + > + dnl first we check the system location for eigen libraries > + if test "$ac_eigen_path" != ""; then > +-EIGEN_CPPFLAGS="-I$ac_eigen_path/include" > ++EIGEN_CPPFLAGS="-I$ac_eigen_path" > + else > + for ac_eigen_path_tmp in /usr /usr/local /opt /opt/local ; do > + if test -d "$ac_eigen_path_tmp/include/eigen" && test -r > "$ac_eigen_path_tmp/include/eigen"; then > Index: packages/cufflinks/trunk/debian/rules > =================================================================== > --- packages/cufflinks/trunk/debian/rules (revision 38) > +++ packages/cufflinks/trunk/debian/rules (revision 43) > @@ -4,6 +4,16 @@ > #export DH_VERBOSE=1 > > +export DEB_BUILD_HARDENING=1 > +export DEB_BUILD_HARDENING_FORMAT=0 > +export DEB_BUILD_OPTIONS="parallel=$(shell getconf _NPROCESSORS_ONLN)" > + > %: > dh $@ --with autoreconf > + > +override_dh_auto_configure: > + dh_auto_configure -- --with-eigen=/usr/include/eigen3/ > + > +override_dh_auto_build: > + dh_auto_build -- -j$(shell getconf _NPROCESSORS_ONLN) > > override_dh_auto_clean: > > _______________________________________________ > Debian-med-packaging mailing list > debian-med-packag...@lists.alioth.debian.org > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging > > > ----- End forwarded message ----- > > -- > http://fam-tille.de
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