[ssm] branch master updated (2b7fb39 -> e8835a8)

[Frédéric-Emmanuel Picca]

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picca pushed a change to branch master
in repository ssm.

      from  2b7fb39   update the symbols file
       new  457a00c   remove uupdate from the watch file
       new  806ec2e   Imported Upstream version 1.3
       new  7f65742   Merge tag 'upstream/1.3'
       new  d9fea4a   fix the package with cme
       new  e8835a8   prepare for release

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Summary of changes:
 Makefile.am                                 |   13 +-
 Makefile.in                                 |  245 ++-
 aclocal.m4                                  |  446 +++--
 build-aux/ar-lib                            |  270 +++
 build-aux/config.guess                      |  261 +--
 build-aux/config.sub                        |  213 +-
 build-aux/depcomp                           |  189 +-
 build-aux/install-sh                        |   35 +-
 build-aux/missing                           |  148 +-
 configure                                   | 2793 +++++++++++++++------------
 configure.ac                                |    7 +-
 debian/changelog                            |    4 +-
 debian/control                              |   41 +-
 debian/copyright                            |   29 +-
 debian/{libssm0.install => libssm1.install} |    0
 debian/libssm1.symbols                      |  447 +++++
 debian/rules                                |    2 +-
 debian/watch                                |    2 +-
 m4/libtool.m4                               |  265 ++-
 m4/ltoptions.m4                             |   19 +-
 ss_csia.h                                   |  162 --
 ss_graph.h                                  |  266 ---
 ss_vxedge.h                                 |  232 ---
 ssm_align.cpp                               |  393 ++--
 ssm_align.h                                 |  325 ++--
 ss_csia.cpp => ssm_csia.cpp                 |  264 +--
 ssm_csia.h                                  |  162 ++
 ssm_defs.h                                  |   89 +
 ss_graph.cpp => ssm_graph.cpp               |  949 ++++-----
 ssm_graph.h                                 |  238 +++
 ssm_malign.cpp                              | 2525 ++++++++++++++++++++++++
 ssm_malign.h                                |  313 +++
 ssm_superpose.cpp                           |  259 +--
 ssm_superpose.h                             |  497 +++--
 ss_vxedge.cpp => ssm_vxedge.cpp             |  474 ++---
 ssm_vxedge.h                                |  219 +++
 sup_defs.h                                  |   31 +
 sup_multiple.cpp                            |  258 +++
 sup_multiple.h                              |   34 +
 sup_pairwise.cpp                            |  273 +++
 sup_pairwise.h                              |   33 +
 superpose.cpp                               |  464 ++---
 42 files changed, 9441 insertions(+), 4448 deletions(-)
 create mode 100755 build-aux/ar-lib
 rename debian/{libssm0.install => libssm1.install} (100%)
 create mode 100644 debian/libssm1.symbols
 delete mode 100644 ss_csia.h
 delete mode 100644 ss_graph.h
 delete mode 100644 ss_vxedge.h
 rename ss_csia.cpp => ssm_csia.cpp (75%)
 create mode 100644 ssm_csia.h
 create mode 100644 ssm_defs.h
 rename ss_graph.cpp => ssm_graph.cpp (50%)
 create mode 100644 ssm_graph.h
 create mode 100644 ssm_malign.cpp
 create mode 100644 ssm_malign.h
 rename ss_vxedge.cpp => ssm_vxedge.cpp (67%)
 create mode 100644 ssm_vxedge.h
 create mode 100644 sup_defs.h
 create mode 100644 sup_multiple.cpp
 create mode 100644 sup_multiple.h
 create mode 100644 sup_pairwise.cpp
 create mode 100644 sup_pairwise.h

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