[med-svn] [roary] branch upstream updated (ae62722 -> c6fdb3c)

[Sascha Steinbiss]

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

satta pushed a change to branch upstream
in repository roary.

      from  ae62722   New upstream version 3.9.0+dfsg
       new  c6fdb3c   New upstream version 3.9.1+dfsg

The 1 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.


Summary of changes:
 dist.ini                                           |   2 +-
 lib/Bio/Roary.pm                                   |   2 +
 lib/Bio/Roary/CommandLine/Roary.pm                 |  10 +-
 lib/Bio/Roary/CommandLine/RoaryCoreAlignment.pm    |   9 +-
 lib/Bio/Roary/CommandLine/RoaryPostAnalysis.pm     |   7 +-
 .../Roary/External/GeneAlignmentFromNucleotides.pm |   2 +
 lib/Bio/Roary/External/PostAnalysis.pm             |   5 +
 lib/Bio/Roary/ExtractCoreGenesFromSpreadsheet.pm   | 227 ++++++++++-----------
 lib/Bio/Roary/MergeMultifastaAlignments.pm         |   2 +-
 t/Bio/Roary/ExtractCoreGenesFromSpreadsheet.t      |  67 ++++--
 10 files changed, 194 insertions(+), 139 deletions(-)

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