[med-svn] [last-align] branch upstream updated (e10f0c8 -> d1b9bf4)

[Charles Plessy]

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plessy pushed a change to branch upstream
in repository last-align.

      from  e10f0c8   Imported Upstream version 737
      adds  d1b9bf4   Imported Upstream version 746

No new revisions were added by this update.

Summary of changes:
 ChangeLog.txt                   |  51 ++++++++++++++++++-
 src/Centroid.cc                 | 110 ++++++++++++++++++++--------------------
 src/Centroid.hh                 |  17 ++++---
 src/GappedXdropAligner.cc       |  29 ++++-------
 src/GappedXdropAligner.hh       |  35 +++++++------
 src/GappedXdropAligner2qual.cc  |   6 +--
 src/GappedXdropAligner3frame.cc |  12 ++---
 src/GappedXdropAlignerPssm.cc   |   6 +--
 src/LastalArguments.cc          |  15 +++---
 src/SubsetSuffixArraySearch.cc  |   3 +-
 src/alp/sls_alp_data.cpp        |  20 +-------
 src/alp/sls_alp_data.hpp        |   4 --
 src/alp/sls_basic.cpp           |  26 +++++++++-
 src/alp/sls_basic.hpp           |   4 +-
 src/alp/sls_fsa1.cpp            |  19 +------
 src/alp/sls_fsa1_utils.cpp      |  18 +------
 src/alp/sls_fsa1_utils.hpp      |   6 ---
 src/lastal.cc                   |   3 ++
 src/version.hh                  |   2 +-
 19 files changed, 202 insertions(+), 184 deletions(-)

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