[ssm] branch master updated (5bb48f9 -> 1ce4adf)

[Frédéric-Emmanuel Picca]

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picca pushed a change to branch master
in repository ssm.

      from  5bb48f9   Add proper citation record in debian/upstream/metadata and remove citation information from long description
       new  8c5474b   update the watch file.
      adds  420b928   Imported Upstream version 1.4
       new  255b63f   Merge tag 'upstream/1.4'
       new  f160f73   update for the ssm 1.4 version
       new  1ce4adf   release

The 4 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:
 INSTALL                                     |  15 +-
 Makefile.am                                 |  21 +-
 Makefile.in                                 | 311 +++++++++-----
 aclocal.m4                                  | 276 ++++++------
 build-aux/ar-lib                            |   2 +-
 build-aux/config.guess                      | 182 ++++----
 build-aux/config.sub                        |  88 ++--
 build-aux/depcomp                           | 454 +++++++++++---------
 build-aux/missing                           | 405 +++++++-----------
 configure                                   |  98 +++--
 configure.ac                                |  24 +-
 debian/changelog                            |  13 +-
 debian/control                              |  31 +-
 debian/libssm-bin.install                   |   1 +
 debian/libssm0.symbols                      | 338 ---------------
 debian/libssm1.symbols                      | 447 --------------------
 debian/{libssm1.install => libssm2.install} |   0
 debian/rules                                |   4 +-
 debian/watch                                |   2 +-
 ssm.pc.in                                   |  12 +
 ssm_align.cpp => ssm/ssm_align.cpp          | 195 +++++----
 ssm/ssm_align.h                             | 217 ++++++++++
 ssm_csia.cpp => ssm/ssm_csia.cpp            | 219 +++++-----
 ssm/ssm_csia.h                              | 184 ++++++++
 ssm/ssm_defs.h                              | 125 ++++++
 ssm_graph.cpp => ssm/ssm_graph.cpp          | 378 +++++++++--------
 ssm_graph.h => ssm/ssm_graph.h              | 162 ++++----
 ssm_malign.cpp => ssm/ssm_malign.cpp        | 622 +++++++++++++++-------------
 ssm/ssm_malign.h                            | 345 +++++++++++++++
 ssm_superpose.cpp => ssm/ssm_superpose.cpp  | 607 ++++++++++++++-------------
 ssm/ssm_superpose.h                         | 295 +++++++++++++
 ssm_vxedge.cpp => ssm/ssm_vxedge.cpp        | 368 ++++++++--------
 ssm/ssm_vxedge.h                            | 241 +++++++++++
 ssm_align.h                                 | 193 ---------
 ssm_csia.h                                  | 162 --------
 ssm_defs.h                                  |  89 ----
 ssm_malign.h                                | 313 --------------
 ssm_superpose.h                             | 268 ------------
 ssm_vxedge.h                                | 219 ----------
 sup_defs.h                                  |  60 ++-
 sup_multiple.cpp                            | 103 +++--
 sup_multiple.h                              |  67 ++-
 sup_pairwise.cpp                            |  70 +++-
 sup_pairwise.h                              |  67 ++-
 superpose.cpp                               | 130 ++++--
 45 files changed, 4201 insertions(+), 4222 deletions(-)
 create mode 100644 debian/libssm-bin.install
 delete mode 100644 debian/libssm0.symbols
 delete mode 100644 debian/libssm1.symbols
 rename debian/{libssm1.install => libssm2.install} (100%)
 create mode 100644 ssm.pc.in
 rename ssm_align.cpp => ssm/ssm_align.cpp (79%)
 mode change 100644 => 100755
 create mode 100755 ssm/ssm_align.h
 rename ssm_csia.cpp => ssm/ssm_csia.cpp (78%)
 mode change 100644 => 100755
 create mode 100755 ssm/ssm_csia.h
 create mode 100755 ssm/ssm_defs.h
 rename ssm_graph.cpp => ssm/ssm_graph.cpp (75%)
 mode change 100644 => 100755
 rename ssm_graph.h => ssm/ssm_graph.h (52%)
 mode change 100644 => 100755
 rename ssm_malign.cpp => ssm/ssm_malign.cpp (78%)
 mode change 100644 => 100755
 create mode 100755 ssm/ssm_malign.h
 rename ssm_superpose.cpp => ssm/ssm_superpose.cpp (80%)
 create mode 100755 ssm/ssm_superpose.h
 rename ssm_vxedge.cpp => ssm/ssm_vxedge.cpp (71%)
 mode change 100644 => 100755
 create mode 100755 ssm/ssm_vxedge.h
 delete mode 100644 ssm_align.h
 delete mode 100644 ssm_csia.h
 delete mode 100644 ssm_defs.h
 delete mode 100644 ssm_malign.h
 delete mode 100644 ssm_superpose.h
 delete mode 100644 ssm_vxedge.h

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