This is an automated email from the git hooks/post-receive script. tille pushed a commit to tag debian/2.1.0-1 in repository hisat2.
commit f2507fbc66b1f50e33f12bc91881f383f9922bf5 Merge: 4ea99af 81f4522 Author: Andreas Tille <[email protected]> Date: Mon Sep 4 14:37:20 2017 +0200 Updated version 2.1.0 from 'upstream/2.1.0' with Debian dir 0ccdbdb0fb254230ed4ea3ad90a0fbc721fbccad MANUAL | 17 +- MANUAL.markdown | 54 +- Makefile | 2 + VERSION | 2 +- aligner_swsse.h | 2 +- aligner_swsse_ee_i16.cpp | 2 +- aligner_swsse_ee_u8.cpp | 2 +- aligner_swsse_loc_i16.cpp | 2 +- aligner_swsse_loc_u8.cpp | 2 +- aln_sink.h | 535 ++-- alt.h | 109 +- diff_sample.h | 4 +- doc/manual.inc.html | 28 +- ds.cpp | 2 +- fast_mutex.h | 542 ++-- gbwt_graph.h | 34 +- gfm.h | 77 +- gp.h | 24 +- hgfm.h | 15 +- hi_aligner.h | 629 ++++- hisat2 | 124 +- hisat2.cpp | 107 +- hisat2_build.cpp | 11 +- hisat2_genotype.py | 1099 -------- hisat2_inspect.cpp | 23 +- hisat2_test_BRCA_genotyping.py | 827 ------ hisat2_test_HLA_genotyping.py | 2699 -------------------- hisatgenotype.py | 489 ++++ ...type_genome.py => hisatgenotype_build_genome.py | 382 ++- hisatgenotype_extract_reads.py | 430 ++++ hisatgenotype_extract_vars.py | 1264 +++++---- ...tgenotype_typing.py => hisatgenotype_hla_cyp.py | 223 +- hisatgenotype_locus.py | 2335 +++++++++++++++++ hisatgenotype_modules/__init__.py | 0 .../hisatgenotype_assembly_graph.py | 1771 +++++++++++++ .../hisatgenotype_convert_codis.py | 627 +++++ .../hisatgenotype_extract_codis_data.py | 166 ++ .../hisatgenotype_extract_cyp_data.py | 1061 ++++++++ hisatgenotype_modules/hisatgenotype_gene_typing.py | 18 + .../hisatgenotype_typing_common.py | 1549 +++++++++++ hisatgenotype_scripts/compare_HLA_Omixon.py | 129 + hisatgenotype_scripts/extract_Omixon_HLA.py | 115 + .../get_haplotype_ILMN_StrandSeq.py | 97 + .../hisatgenotype_HLA_genotyping_PGs.py | 199 ++ .../hisatgenotype_locus_samples.py | 275 ++ old_hisat2_test_HLA_genotyping.py | 1341 ---------- opts.h | 6 + pe.cpp | 1 + processor_support.h | 9 +- qual.h | 1 + spliced_aligner.h | 149 +- tp.h | 12 +- util.h | 2 +- 53 files changed, 11897 insertions(+), 7728 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/hisat2.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
