This is an automated email from the git hooks/post-receive script. plessy pushed a commit to branch debian/unstable in repository htslib.
commit 0662716ffdbffe1d3606a8182a0ce33f4edd81c0 Merge: 9750123 26229a3 Author: Charles Plessy <[email protected]> Date: Mon May 25 11:44:54 2015 +0900 Merge tag '1.2.1' into debian/unstable HTSlib patch release 1.2.1, reinstated hts_file_type() .gitignore | 10 +- INSTALL | 88 +- Makefile | 103 +- NEWS | 50 + README.md | 16 + bgzf.c | 13 +- bgzip.c | 2 +- config.h | 3 - config.mk.in | 72 ++ configure.ac | 93 ++ cram/cram.h | 9 +- cram/cram_codecs.c | 230 ++-- cram/cram_codecs.h | 22 +- cram/cram_decode.c | 1339 ++++++++++++++++------ cram/cram_encode.c | 1994 ++++++++++++++++++++------------- cram/cram_index.c | 82 +- cram/cram_io.c | 1382 ++++++++++++++++------- cram/cram_io.h | 98 +- cram/cram_samtools.c | 5 +- cram/cram_stats.c | 123 +- cram/cram_structs.h | 329 +++--- cram/os.h | 2 + cram/rANS_byte.h | 336 ++++++ cram/rANS_static.c | 841 ++++++++++++++ cram/rANS_static.h | 44 + cram/sam_header.c | 8 +- cram/sam_header.h | 8 - cram/thread_pool.c | 178 ++- cram/thread_pool.h | 15 +- cram/vlen.c | 2 +- faidx.c | 36 +- hfile.c | 23 +- hfile_internal.h | 3 +- hfile_irods.c | 243 ++++ hts.c | 531 +++++++-- htsfile.1 | 71 ++ htsfile.c | 168 +++ htslib.mk | 7 +- htslib/faidx.h | 2 +- htslib/hfile.h | 10 +- htslib/hts.h | 146 ++- htslib/khash.h | 8 +- htslib/kseq.h | 10 +- htslib/regidx.h | 13 +- htslib/sam.h | 2 +- htslib/synced_bcf_reader.h | 15 +- htslib/vcf.h | 15 +- htslib_vars.mk | 2 +- knetfile.c | 11 +- regidx.c | 18 +- sam.c | 134 ++- synced_bcf_reader.c | 82 +- tabix.1 | 121 +- tabix.c | 268 +++-- tbx.c | 5 + test/{aux#aux.sam => auxf#values.sam} | 0 test/{aux.fa => auxf.fa} | 0 test/{aux.fa.fai => auxf.fa.fai} | 0 test/hfile.c | 4 +- test/sam.c | 52 +- test/test-vcf-api.c | 57 +- test/test_view.c | 92 +- vcf.c | 207 ++-- vcfutils.c | 63 +- 64 files changed, 7514 insertions(+), 2402 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/htslib.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
