[med-svn] [bioperl] branch master updated (344ba34 -> 9e6d2fe)

[Andreas Tille]

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

tille pushed a change to branch master
in repository bioperl.

      from  344ba34   Current changelog.
      adds  532cf8a   New upstream version 1.7
      adds  80d2564   Merge tag 'upstream/1.7'
      adds  c402620   d/watch: uversionmangle to get proper version number
      adds  5a744a0   New upstream version 1.7.1
      adds  46c8051   Merge tag 'upstream/1.7.1'
      adds  ac5df4c   debhelper 10
      adds  9e6d2fe   Close bug, upload to unstable

No new revisions were added by this update.

Summary of changes:
 .travis.yml                             |   13 +-
 Bio/Align/AlignI.pm                     |  102 +-
 Bio/AlignIO/fasta.pm                    |    2 +-
 Bio/AlignIO/maf.pm                      |    4 +-
 Bio/AnalysisI.pm                        |   14 +-
 Bio/DB/Expression/geo.pm                |    8 +-
 Bio/DB/GFF/Typename.pm                  |    2 +-
 Bio/DB/GenBank.pm                       |    2 +-
 Bio/DB/MeSH.pm                          |   98 +-
 Bio/DB/SeqFeature/Store/LoadHelper.pm   |    2 +-
 Bio/DB/SeqVersion/gi.pm                 |    6 +-
 Bio/DB/Taxonomy/entrez.pm               |   59 +-
 Bio/Index/Stockholm.pm                  |   60 +-
 Bio/Restriction/IO/prototype.pm         |    2 +-
 Bio/Root/Build.pm                       |   29 +
 Bio/Root/IO.pm                          |   29 +-
 Bio/Root/Version.pm                     |    2 +-
 Bio/Search/Hit/GenericHit.pm            |    5 +-
 Bio/Search/Hit/ModelHit.pm              |    3 +
 Bio/Search/Result/GenericResult.pm      |    4 +-
 Bio/Search/Result/ResultI.pm            |    4 +-
 Bio/SearchIO/Writer/HTMLResultWriter.pm |    4 +-
 Bio/SeqFeature/Tools/Unflattener.pm     |    2 +-
 Bio/SeqIO.pm                            |   18 +-
 Bio/SeqIO/bsml.pm                       |   49 +-
 Bio/SeqIO/embl.pm                       |   29 +-
 Bio/SeqIO/tinyseq.pm                    |    4 +-
 Bio/SeqIO/tinyseq/tinyseqHandler.pm     |    6 +-
 Bio/Tools/CodonTable.pm                 |   28 +-
 Bio/Tools/ERPIN.pm                      |  350 -----
 Bio/Tools/GFF.pm                        |   21 +-
 Bio/Tools/Infernal.pm                   |  492 -------
 Bio/Tools/RNAMotif.pm                   |  427 ------
 Bio/Tools/Run/RemoteBlast.pm            |    4 +-
 Build.PL                                |   10 +-
 Changes                                 |   61 +-
 INSTALL-WIN.md                          |   87 +-
 INSTALL.md                              |  160 +-
 MANIFEST                                |    6 +-
 META.json                               | 2419 ++++++++++++++++++++-----------
 META.yml                                |  816 ++++++++++-
 debian/changelog                        |   10 +-
 debian/compat                           |    2 +-
 debian/control                          |    2 +-
 debian/watch                            |    3 +-
 maintenance/authors.pl                  |    2 +-
 scripts/DB-HIV/bp_hivq.pl               |   24 +-
 scripts/DB/bp_biofetch_genbank_proxy.pl |    4 +-
 scripts/DB/bp_biogetseq.pl              |    2 +-
 scripts/seq/bp_extract_feature_seq.pl   |    6 +-
 scripts/seq/bp_seqcut.pl                |   17 +-
 scripts/taxa/bp_taxid4species.pl        |    2 +-
 scripts/utilities/bp_netinstall.pl      |   24 +-
 scripts/utilities/bp_search2gff.pl      |    4 +-
 t/AlignIO/fasta.t                       |    8 +-
 t/LocalDB/Fasta.t                       |   20 +-
 t/LocalDB/Taxonomy/sqlite.t             |    3 +-
 t/RemoteDB/GenBank.t                    |    3 +-
 t/RemoteDB/MeSH.t                       |   21 +-
 t/RemoteDB/Taxonomy.t                   |   30 +-
 t/SeqIO/fastq.t                         |   16 +-
 t/SeqTools/CodonTable.t                 |   27 +-
 t/Tools/Analysis/Protein/ELM.t          |   40 +-
 t/Tools/rnamotif.t                      |  230 ---
 t/data/EG352462.gbxml                   |    2 +-
 t/data/dbfa/mixed_alphabet.fasta        |   12 +
 t/data/fastq/RT98876.fastq              |    4 +
 t/data/so.obo                           |   20 +-
 t/data/test.locuslink                   |   12 +-
 t/data/test.tseq                        |    2 +-
 travis_scripts/trigger-dockerhub.sh     |   49 +
 71 files changed, 3265 insertions(+), 2779 deletions(-)
 delete mode 100644 Bio/Tools/ERPIN.pm
 delete mode 100644 Bio/Tools/Infernal.pm
 delete mode 100644 Bio/Tools/RNAMotif.pm
 delete mode 100644 t/Tools/rnamotif.t
 create mode 100644 t/data/fastq/RT98876.fastq
 create mode 100755 travis_scripts/trigger-dockerhub.sh

-- 
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