[med-svn] [bowtie] branch master updated (76ef974 -> b1f7a0e)

[Alex Mestiashvili]

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

malex-guest pushed a change to branch master
in repository bowtie.

      from  76ef974   Update changelog, prepare for upload to unstable
       new  0e7d77e   New upstream version 1.2.2+dfsg
       new  73fe817   Update upstream source from tag 'upstream/1.2.2+dfsg'
       new  600747e   Refresh patches
       new  20ba08b   Bump Standards-Version to 4.1.2
       new  54932df   Update copyright, note license change to Artistic License 2.0
       new  b1f7a0e   Update changelog, prepare for release

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:
 MANUAL                                           |  38 ++--
 Makefile                                         |   9 +-
 NEWS                                             |  12 ++
 VERSION                                          |   2 +-
 bowtie                                           |   8 +-
 debian/changelog                                 |   8 +-
 debian/control                                   |   2 +-
 debian/copyright                                 | 215 ++++++++++++++++++++---
 debian/patches/build-as-Cpp03.patch              |   2 +-
 debian/patches/disable_bits_flag.patch           |   2 +-
 debian/patches/enable_arm64.patch                |   2 +-
 debian/patches/gcc-64bit.patch                   |   2 +-
 debian/patches/no_hash_style_both_for_mips.patch |   2 +-
 debian/patches/ppc64el.patch                     |   4 +-
 debian/patches/reproducible.patch                |   4 +-
 debian/patches/seqan-rename-ChunkPool.patch      |   8 +-
 debian/patches/use-dpkg-buildflags.patch         |   2 +-
 debian/patches/use_debian_seqan.patch            |   2 +-
 doc/manual.html                                  |  44 +++--
 doc/website/manual.ssi                           |  46 +++--
 doc/website/old_news.ssi                         |  38 ++++
 doc/website/recent_news.ssi                      |  53 ++----
 doc/website/rhsidebar.ssi                        |   4 +-
 ebwt_search.cpp                                  | 146 +++++++--------
 multikey_qsort.h                                 |   3 -
 25 files changed, 425 insertions(+), 233 deletions(-)

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