[med-svn] [maffilter] branch master updated (cf057a5 -> ce9be36)

[Andreas Tille]

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tille pushed a change to branch master
in repository maffilter.

      from  cf057a5   Package does not build with full hardening
       new  e281e4f   New upstream version, Fix watch file
       new  9a5e284   New upstream version 1.2.1
       new  115992b   Merge tag 'upstream/1.2.1'
       new  4dab667   debhelper 10; adjust versioned Build-Depends
       new  d4675e7   Add compression method to watch file
       new  d8e6558   New upstream version 1.2.1+dfsg
       new  1af8b85   Merge tag 'upstream/1.2.1+dfsg'
       new  ce9be36   Hardening=+all; upload to unstable

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repository and will be described in separate emails.  The revisions
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Summary of changes:
 AUTHORS.txt => AUTHORS                             |   0
 CMakeLists.txt                                     | 277 +++-----
 COPYING.txt                                        | 506 ---------------
 ChangeLog                                          |  44 +-
 INSTALL.txt => INSTALL                             |   2 +-
 LICENSE                                            | 674 ++++++++++++++++++++
 MafFilter/CMakeLists.txt                           |  23 +-
 MafFilter/MafFilter.cpp                            | 605 ++++++++++++++++--
 MafFilter/SystemCallMafIterator.cpp                |  84 +++
 ...aturesMafIterator.h => SystemCallMafIterator.h} |  75 ++-
 ...r.cpp => TreeBuildingSystemCallMafIterator.cpp} |  60 +-
 ...rator.h => TreeBuildingSystemCallMafIterator.h} |  80 ++-
 buildBin.sh                                        |   7 +
 debian/changelog                                   |  10 +
 debian/compat                                      |   2 +-
 debian/control                                     |   4 +-
 debian/maffilter.docs                              |   2 +-
 debian/rules                                       |   3 +-
 debian/watch                                       |   4 +-
 doc/CMakeLists.txt                                 |  80 ++-
 doc/maffilter.texi                                 | 695 +++++++++++++++++----
 ...rojected.chr22.subset.nogap.cleaned_aln.maf.gz} | Bin 20032238 -> 13206362 bytes
 examples/UCSC46ways/MafFilter.bpp                  |   2 +-
 examples/UCSC46ways/README                         |   1 +
 ...Mgraminicolav2.FrozenGeneCatalog20080910.gff.gz | Bin 0 -> 809905 bytes
 examples/Ztritici/tba_refIPO323.maf.gz             | Bin 0 -> 60513136 bytes
 maffilter.spec                                     |  66 +-
 man/CMakeLists.txt                                 |  47 +-
 man/{maffilter.1.txt => maffilter.1}               |   2 +-
 29 files changed, 2307 insertions(+), 1048 deletions(-)
 rename AUTHORS.txt => AUTHORS (100%)
 delete mode 100644 COPYING.txt
 rename INSTALL.txt => INSTALL (88%)
 create mode 100644 LICENSE
 create mode 100644 MafFilter/SystemCallMafIterator.cpp
 copy MafFilter/{OutputAsFeaturesMafIterator.h => SystemCallMafIterator.h} (55%)
 copy MafFilter/{OutputAsFeaturesMafIterator.cpp => TreeBuildingSystemCallMafIterator.cpp} (50%)
 copy MafFilter/{OutputAsFeaturesMafIterator.h => TreeBuildingSystemCallMafIterator.h} (50%)
 create mode 100755 buildBin.sh
 copy examples/{Umaydis/Umaydis.fasta => Gorilla/Compara.epo_5_catarrhini_hsap-projected.chr22.subset.nogap.cleaned_aln.maf.gz} (50%)
 create mode 100644 examples/Ztritici/Mgraminicolav2.FrozenGeneCatalog20080910.gff.gz
 create mode 100644 examples/Ztritici/tba_refIPO323.maf.gz
 rename man/{maffilter.1.txt => maffilter.1} (90%)

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