[med-svn] [SCM] tophat annotated tag, debian/1.4.1-1, created. debian/1.4.1-1

[Charles Plessy]

The annotated tag, debian/1.4.1-1 has been created
        at  d998700982ce2aff32a420d843df41930ddb2825 (tag)
   tagging  a7aaa860708f38826798900b80fd2a7d5901a765 (commit)
  replaces  upstream/1.4.0
 tagged by  Charles Plessy
        on  Mon Feb 6 16:21:06 2012 +0900

- Shortlog ------------------------------------------------------------
Uploaded tophat_1.4.1-1_amd64.changes.
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Alexandre Mestiashvili (19):
      Merge commit 'upstream/1.3.3'
      New upstream release 1.3.3
      Removed dh-make template from watch file
      some cleanup in debian/* ;see debian/changelog for details
      added patch to fix ax_bam.m4 , changed rules to use autoreconf
      src/bam_merge.cpp contains bam/bam.h bam/sam.h headers ,
      No need in fix_configure.patch patch , replaced by bam2samtools.
      Added Build-Depends: dh-autoreconf
      Use seqan lib from debian and not from source
      removed wrong new line in debian/control
      Added build-dependency quilt
      in new seqan v1.3  function reverseInPlace seems to be renamed to reverse
      debian/control python-all denepdency
      Added seqan-dev dependency
      debian/control Added python dependency to binary package
      updated changelog
      Removed quilt patch management.
      Added DEP3 headers to patches.
      Added Pre-Depends: dpkg (>= 1.15.6) (xz compression)

Carlos Borroto (10):
      Imported Debian patch 1.3.1-1ppa1~lucid1
      Merge commit 'upstream/1.4.0'
      New upstream release, patches updated
      adding patch to fix undefined reference error
      refreshs debian/patches/fix_undefined_reference.patch to include
      adds debian/watch file
      Imported Upstream version 1.4.1
      Merge commit 'upstream/1.4.1'
      removes debian/patches/fix_undefined_reference.patch no longer needed in new upstream
      updated changelog for new upstream

Charles Plessy (9):
      Corrected VCS URL.
      Minor description changes.
      Recommend bowtie.
      Normalised with config-edit --application dpkg-copyright.
      Documented SeqAn and m4 macros.
      Merged bam2samtools and fix_includes_path.patch (same purpose).
      Build-depend only on python.
      Tighten build-dependancy on sequan-dev
      Uploading 1.4.1-1.

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-- 
A spliced read mapper for RNA-Seq