This is an automated email from the git hooks/post-receive script. malex-guest pushed a commit to branch master in repository bowtie2.
commit bea35b84566a15de1b613754cdbc5f1e1e4eaeba Merge: 450d7d0 c97d572 Author: Alexandre Mestiashvili <[email protected]> Date: Mon Sep 11 10:22:42 2017 +0200 Updated version 2.3.3 from 'upstream/2.3.3' with Debian dir 1ac541f9892076fba075ebc3f51ffa90a15e44c7 .gitignore | 26 - .travis.yml | 21 - AUTHORS | 6 + MANUAL | 2573 +++++++++++++++++++++-------------------- MANUAL.markdown | 831 ++++++-------- Makefile | 3 +- NEWS | 35 +- VERSION | 2 +- aligner_cache.cpp | 23 +- aligner_cache.h | 141 ++- aligner_result.h | 57 +- aligner_seed.cpp | 18 +- aligner_seed.h | 3 +- aligner_seed_policy.cpp | 11 +- aligner_sw_common.h | 4 +- aligner_sw_driver.cpp | 20 +- aligner_swsse.h | 3 +- aligner_swsse_ee_i16.cpp | 2 +- aligner_swsse_loc_i16.cpp | 2 +- aligner_swsse_loc_u8.cpp | 2 +- aln_sink.cpp | 40 +- aln_sink.h | 12 +- blockwise_sa.h | 205 ++-- bowtie2 | 7 +- bowtie_main.cpp | 2 +- bt2_build.cpp | 25 +- bt2_search.cpp | 2620 +++++++++++++++++++++++------------------- diff_sample.h | 324 +++--- doc/manual.html | 139 ++- doc/strip_markdown.pl | 45 - doc/website/manual.ssi | 141 ++- doc/website/recent_news.ssi | 38 +- doc/website/rhsidebar.ssi | 4 +- ds.cpp | 4 +- ds.h | 10 +- endian_swap.h | 4 +- filebuf.h | 40 +- group_walk.h | 27 +- multikey_qsort.h | 6 +- opts.h | 4 + outq.cpp | 72 +- outq.h | 38 +- pat.cpp | 133 ++- pat.h | 53 +- presets.cpp | 21 +- read_qseq.cpp | 12 +- scripts/sim/Sim.pm | 2 +- scripts/test/simple_tests.pl | 85 +- search_globals.h | 2 - threading.h | 38 +- 50 files changed, 4219 insertions(+), 3717 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/bowtie2.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
