[med-svn] [andi] branch upstream updated (dad0e7a -> 88a91de)

[Fabian Klötzl]

This is an automated email from the git hooks/post-receive script.

kloetzl-guest pushed a change to branch upstream
in repository andi.

      from  dad0e7a   Imported Upstream version 0.10
       new  88a91de   Imported Upstream version 0.11

The 1 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:
 .travis.yml                 |   2 +-
 Makefile.am                 |   9 +--
 README.md                   |   4 +-
 andi-manual.pdf             | Bin 440783 -> 444354 bytes
 configure.ac                |   2 +-
 docs/andi.1.in              |  16 +++--
 docs/manual/andi-manual.tex |  76 +++++++++++++++-------
 libs/pfasta.c               |   9 ++-
 scripts/_andi               |  40 ++++++++++++
 src/andi.c                  | 155 +++++++++++++++++++++++++-------------------
 src/dist_hack.h             |  22 +++----
 src/esa.c                   |  10 +--
 src/esa.h                   |   4 +-
 src/global.h                |  10 ++-
 src/io.c                    | 137 +++++++++++++++++++++++++++++++++++++--
 src/io.h                    |  22 ++++++-
 src/model.c                 |  11 ++--
 src/process.c               | 113 +++++++-------------------------
 src/sequence.c              |  10 +--
 src/sequence.h              |   5 +-
 test/test_extra.sh          |  12 +++-
 test/test_fasta.cxx         |   2 +-
 22 files changed, 432 insertions(+), 239 deletions(-)
 create mode 100755 scripts/_andi

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