[med-svn] samtools annotated tag debian/1.1-1 created (now ca5d3b3)

[Charles Plessy]

This is an automated email from the git hooks/post-receive script.

plessy pushed a change to annotated tag debian/1.1-1
in repository samtools.

        at  ca5d3b3   (tag)
   tagging  91356d65b732a7d22a7fff994f9c6d17d75568e3 (commit)
  replaces  debian/1.0-1
 tagged by  Charles Plessy
        on  Thu Sep 25 09:05:28 2014 +0900

- Log -----------------------------------------------------------------
samtools (1.1-1) unstable; urgency=medium

  c448d48 Merge tag '1.1' into debian/unstable
  d12ab1e Merge branch 'develop' into debian/unstable to solve issue
          with regression tests needing a pseudo-terminal.
          See https://github.com/samtools/samtools/issues/300
  c87f8ce Add autopkg tests.
  7c50b7b Removed python-wrong-path-for-interpreter.patch
          (issue solved upstream).

 -- Charles Plessy <plessy at debian.org>  Thu, 25 Sep 2014 09:04:20 +0900
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Charles Plessy (7):
      Add autopkg tests.
      Current changelog.
      Merge tag '1.1' into debian/unstable
      Merge branch 'develop' into debian/unstable
      Removed python-wrong-path-for-interpreter.patch, solved upstream.
      Removed sed command redundant with patch dynamic-build.patch.
      samtools (1.1-1) unstable; urgency=medium

Christian Krause (2):
      fixes #271
      fixes #272

James Bonfield (2):
      Modified the mpileup tests to have local copies of appropriate
      Free the kstring allocated in bam_fillmd1_core in all cases

John Marshall (20):
      Merge version number bump from master branch
      No need to initialise array anyway
      Merge stats checksums
      Replace bcftools+bcf_filter.sh with new vcf-miniview
      Insulate test case from $GREP_OPTIONS
      Update expected output with symbolic "<X>" alleles
      Update QS values in expected output, and don't truncate them
      Merge minimal MD5 reference area for mpileup tests
      Merge #! fixes to misc/ scripts
      Formatting fixes for better grinding into HTML
      Recanonicalise test/test.pl whitespace -- USE -b/-w TO DIFF/BLAME
      Recanonicalise padding.c whitespace -- USE -b/-w TO DIFF/BLAME
      Merge abort/assert reduction (PR #290)
      Merge fixmate ct improvements (PR #292)
      Remove view -Q qual_scale option
      Describe compression level settings
      Use hash table to merge reference sequence headers
      Release 1.1: bug fixes
      Merge version number bump from master branch
      Ensure usage tests have a terminal on stdin

Martin O. Pollard (2):
      Reduce use of abort, remove assert(fp), pass one string to fprintf not multicall
      Fixmates ct fix

Martin Pollard (1):
      Fix fixmates for supplementary reads

Petr Danecek (3):
      stats: Compute checksum for names/seqs/quals
      Clean after fix in e3d4eee
      mpileup: conform to VCFv4.2 spec, version string should be quoted

Shane McCarthy (1):
      fix DPR annotation

-----------------------------------------------------------------------

This annotated tag includes the following new commits:

       new  7c50b7b   Removed python-wrong-path-for-interpreter.patch, solved upstream.
       new  dcc1da7   Removed sed command redundant with patch dynamic-build.patch.
       new  91356d6   samtools (1.1-1) unstable; urgency=medium

The 3 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


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