[med-svn] [libbpp-raa] branch master updated (d036205 -> d72b57b)

[Andreas Tille]

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tille pushed a change to branch master
in repository libbpp-raa.

      from  d036205   No need to duplicate license paragraph
       new  e9c9edc   New upstream version, d/watch: point to github
       new  56807c2   New upstream version 2.3.1
       new  1761d4b   Updated version 2.3.1 from 'upstream/2.3.1'
       new  ea640f3   debhelper 10
       new  e86b931   Adapt package names to soversion change, Hardening
       new  d72b57b   Upload to unstable

The 6 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:
 CMakeLists.txt                 |  194 +-
 ChangeLog                      |    4 +
 Doxyfile                       | 2662 +++++++++++--------
 INSTALL.txt                    |   19 +-
 bpp-raa.spec                   |  132 +-
 debian/changelog               |   10 +
 debian/compat                  |    2 +-
 debian/control                 |   14 +-
 debian/rules                   |   11 +-
 debian/watch                   |    5 +-
 header.html                    |   27 +
 package.cmake.in               |   26 +
 src/Bpp/Raa.all                |    6 -
 src/Bpp/Raa/RAA.cpp            |  958 ++++---
 src/Bpp/Raa/RAA.h              |  861 +++---
 src/Bpp/Raa/RAA_acnuc.c        | 5766 ++++++++++++++++++++++------------------
 src/Bpp/Raa/RAA_acnuc.h        |  421 +--
 src/Bpp/Raa/RaaList.cpp        |  103 +-
 src/Bpp/Raa/RaaList.h          |  270 +-
 src/Bpp/Raa/RaaSeqAttributes.h |  121 +-
 src/Bpp/Raa/RaaSpeciesTree.cpp |  131 +-
 src/Bpp/Raa/RaaSpeciesTree.h   |  237 +-
 src/Bpp/Raa/md5.c              |  409 +--
 src/Bpp/Raa/misc_acnuc.c       |   62 +-
 src/Bpp/Raa/parser.c           |  166 +-
 src/Bpp/Raa/parser.h           |   19 +-
 src/Bpp/Raa/zsockr.c           |  212 +-
 src/CMakeLists.txt             |   93 +-
 28 files changed, 7124 insertions(+), 5817 deletions(-)
 create mode 100644 header.html
 create mode 100644 package.cmake.in
 delete mode 100644 src/Bpp/Raa.all

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