[med-svn] [t-coffee] annotated tag upstream/11.00.8cbe486 created (now 60caf72)

[Andreas Tille]

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tille pushed a change to annotated tag upstream/11.00.8cbe486
in repository t-coffee.

        at  60caf72   (tag)
   tagging  48f1cc6c4373dc2d322c04b34d56d7a67a909da3 (commit)
 tagged by  Andreas Tille
        on  Fri Jun 24 18:06:07 2016 +0200

- Log -----------------------------------------------------------------
Upstream version 11.00.8cbe486

Andreas Tille (27):
      Some polishing, added myself to Uploaders even if I do not plan to upload before Charles has finished his planed work.
      Seems the linker result is not moved to directory bin any more but remains in source tree.  Attention: I have NOT read any installation instructions and it might be my change is wrong.  I just triued to fix the packaging bug.  Please handle with care.
      Keep lintian silent and add Depends:  also to arch all packages
      Uploaded
      New upstream version
      New upstream version
      New upstream version, source format 3.0 quilt
      Upload to unstable
      New upstream version
      Single Reference field instead of Reference-*
      Refresh patch
      Cope with renamings of *.pl scripts in ncbi-blast++
      Prepare new upstream version
      Update patches
      Move some suggested packages to Recommends since these are recommended when calling t_coffee --help
      Upload to unstable since waiting for fsa might be not realistic
      cme fix dpkg-control
      update debian/copyright
      fix clean target
      compress changelog with '-n' option
      hardening
      hardening
      Do not build unused TMalign
      Fix Mayhem issue
      Set proper dir permissions, clean up packaging, notice that Mayhem issue is not finally fixed :-(
      Unable to fix Mayhem bug in a sensible time frame - insert some code to make the problem less urgent and drop some debugging code inside debian/patches which is not activated.
      Imported Upstream version 11.00.8cbe486

Charles Plessy (49):
      Debian menu transition also affects doc-base
      Removing obsolete XS- prefix
      dmcoffee works out of the box now
      +XS-DM-Upload-Allowed: Yes
      converting to machine-readable format
      Fixed a building bug, and did various small changes
      Fixing case mistake
      Update to the latest doc-base policy.
      New upstream version, switched to CDBS, updated doc-base sections, using dialign-tx instead of dialign-t for m-coffee.
      Updated my email address.
      (D)M-Coffee has to be tested before uploading this pacakge.
      Reverting changes: version 5.65 is the latest stable version.
      Updated patches (dropping when possible), and copyright.
      Updated the patch. Will upload tomorrow.
      New upstream release with new dependancies.
      The upstream install system was completely refactored, and T-Coffee includes
      Added a new dependancy and corrected a syntax error in debian/control.
      Collected Upstream information in debian/upstream-metadata.yaml.
      Converted and validated debian/copyright to DEP 5 machine-readable format.
      Using debhelper 8.
      Enable upstream tests at build time.
      Uploaded after incrementing Standards-Version and correcting VCS URLs.
      Non-free file found in the new release of T-COFFEE.
      Renamed debian/upstream-metadata.yaml to debian/upstream.
      New upstream release with no new copyright or license compared to version 8.99-1
      Build new Fortran tool.
      Corrected debian/rules as upstream test suite was removed.
      debian/upstream: Moved DOI and PMID to the Reference namespace.
      Document upstream webservice URL.
      Install TMalign.
      Complies with Policy 3.9.3.
      Updated Debian copyright Format URL with 'cme fix dpkg-copyright'.
      Removed doc-base registrations as the files disappeared upstream.
      t-coffee (9.02.r1228-1) unstable; urgency=low
      Corrected the files that did not validate with YAML::XS.
      t-coffee (9.02.r1228-2) unstable; urgency=low
      Normalised debian/control with config-model-edit.
      New upstream release (no new copyright nor license statements).
      Normalised VCS URLs.
      Using Debhelper 9.
      Complies with Policy 3.9.4.
      Consolidated changelog.
      Added trivial header to probconsrna patch.
      Removed README.test as no regression tests are ran anymore.
      t-coffee (9.03.r1318-1) unstable; urgency=low
      New upstream release, no new license statment nor copyright notice.
      Conforms to Policy 3.9.5.
      Suggest ncbi-blast+.
      Removed myself from Uploaders.

David Paleino (6):
      * Using DM-Upload-Allowed instead of XS-DM-Upload-Allowed
      * New upstream release
      * Added myself to Uploaders
      New upstream release
      Patches updated:
      Removed myself from Uploaders (will work "behind the scenes" ;)

James McCoy (1):
      Move debian/upstream to debian/upstream/metadata

Nelson A. de Oliveira (1):
      add watch file

Sascha Steinbiss (1):
      make reproducible, hardening, housekeeping

Steffen Moeller (9):
      [svn-inject] Installing original source of t-coffee
      [svn-inject] Forking t-coffee source to Trunk
      [svn-inject] Applying Debian modifications to trunk
      Some cleanups to adapt T-Coffee for the latest version.
      [t-coffee]
      [t-coffee]
      T-Coffee
      I am a bit uncertain at the moment what all my changes exactly
      Local change left uncommitted ... trivia.

Tim Booth (2):
      Updated to latest upstream, some tweaks for lintian, test built on lucid
      Various changes to T-Coffee.  Main one is that the upstream tarball

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