This is an automated email from the git hooks/post-receive script. misterc-guest pushed a commit to tag debian/2.3.0_0.20161019_af07bc1+dfsg-1 in repository seqan2.
commit d35474a11603dcc93d692ba2adb016a19bd660dd Merge: 91b2729 97da30d Author: Michael R. Crusoe <[email protected]> Date: Thu Oct 20 02:24:34 2016 -0700 Merge tag 'upstream/2.3.0_0.20161019_af07bc1+dfsg' into debian-experimental Upstream version 2.3.0~0.20161019~af07bc1+dfsg apps/alf/CMakeLists.txt | 4 +- apps/bs_tools/CMakeLists.txt | 8 +-- apps/bs_tools/casbar.h | 14 ++--- apps/bs_tools/casbar_score.h | 2 + apps/dfi/CMakeLists.txt | 4 +- apps/dfi/dfi.cpp | 2 + apps/fiona/CMakeLists.txt | 10 ++-- apps/fx_tools/CMakeLists.txt | 4 +- apps/gustaf/CMakeLists.txt | 4 +- apps/insegt/CMakeLists.txt | 4 +- apps/mason2/CMakeLists.txt | 8 +-- apps/micro_razers/CMakeLists.txt | 4 +- apps/ngs_roi/CMakeLists.txt | 6 ++- apps/pair_align/CMakeLists.txt | 4 +- apps/param_chooser/CMakeLists.txt | 4 +- apps/rabema/CMakeLists.txt | 6 ++- apps/razers/CMakeLists.txt | 4 +- apps/razers/readSimulator.h | 2 + apps/razers3/CMakeLists.txt | 10 ++-- apps/razers3/readSimulator.h | 2 + apps/rep_sep/CMakeLists.txt | 4 +- apps/sak/CMakeLists.txt | 4 +- apps/sam2matrix/CMakeLists.txt | 4 +- apps/samcat/CMakeLists.txt | 8 +-- apps/searchjoin/CMakeLists.txt | 6 ++- apps/seqan_tcoffee/CMakeLists.txt | 4 +- apps/seqcons2/CMakeLists.txt | 6 ++- apps/sgip/CMakeLists.txt | 4 +- apps/snp_store/CMakeLists.txt | 8 +-- apps/splazers/CMakeLists.txt | 4 +- apps/splazers/readSimulator.h | 2 + apps/stellar/CMakeLists.txt | 4 +- apps/tree_recon/CMakeLists.txt | 4 +- apps/yara/CMakeLists.txt | 10 ++-- include/seqan/bam_io/cigar.h | 19 ++++--- include/seqan/blast/blast_tabular_in.h | 1 + include/seqan/graph_align/graph_impl_align.h | 12 +++++ include/seqan/graph_types/graph_impl_automaton.h | 55 +++++++++++++++++++ include/seqan/graph_types/graph_impl_directed.h | 64 ++++++++++++++++++++++- include/seqan/graph_types/graph_impl_hmm.h | 12 +++++ include/seqan/graph_types/graph_impl_tree.h | 12 +++++ include/seqan/graph_types/graph_impl_undirected.h | 50 ++++++++++++++++++ include/seqan/graph_types/graph_interface.h | 14 +++++ include/seqan/index/pump_extender7.h | 24 ++++----- include/seqan/index/shape_threshold.h | 2 + include/seqan/journaled_set/score_biaffine.h | 31 ++++++++--- include/seqan/parallel/parallel_lock.h | 24 ++++++--- include/seqan/pipe/pipe_edit_environment.h | 2 + include/seqan/platform.h | 13 +++++ include/seqan/seeds/banded_chain_alignment_impl.h | 19 ++++++- tests/align/CMakeLists.txt | 4 +- tests/align_extend/CMakeLists.txt | 4 +- tests/align_profile/CMakeLists.txt | 4 +- tests/align_split/CMakeLists.txt | 4 +- tests/alignment_free/CMakeLists.txt | 4 +- tests/arg_parse/CMakeLists.txt | 4 +- tests/bam_io/CMakeLists.txt | 6 ++- tests/basic/CMakeLists.txt | 4 +- tests/bed_io/CMakeLists.txt | 4 +- tests/blast/CMakeLists.txt | 4 +- tests/consensus/CMakeLists.txt | 4 +- tests/consensus_v2/CMakeLists.txt | 4 +- tests/find/CMakeLists.txt | 4 +- tests/gff_io/CMakeLists.txt | 4 +- tests/graph_algorithms/CMakeLists.txt | 4 +- tests/graph_align/CMakeLists.txt | 4 +- tests/graph_align/test_graph_impl_align.h | 10 ++++ tests/graph_msa/CMakeLists.txt | 4 +- tests/graph_types/CMakeLists.txt | 4 +- tests/graph_types/test_graph_types_types.cpp | 58 +++++++++++++++++++- tests/index/CMakeLists.txt | 6 ++- tests/journaled_set/CMakeLists.txt | 4 +- tests/journaled_string_tree/CMakeLists.txt | 6 ++- tests/map/CMakeLists.txt | 4 +- tests/misc/CMakeLists.txt | 4 +- tests/modifier/CMakeLists.txt | 4 +- tests/modifier_cyclic_shape/CMakeLists.txt | 4 +- tests/multiple_translation_units/CMakeLists.txt | 4 +- tests/parallel/CMakeLists.txt | 6 ++- tests/parse_lm/CMakeLists.txt | 4 +- tests/pipe/CMakeLists.txt | 4 +- tests/platform/CMakeLists.txt | 4 +- tests/random/CMakeLists.txt | 4 +- tests/realign/CMakeLists.txt | 4 +- tests/reduced_aminoacid/CMakeLists.txt | 4 +- tests/roi_io/CMakeLists.txt | 4 +- tests/score/CMakeLists.txt | 4 +- tests/seeds/CMakeLists.txt | 4 +- tests/seeds/test_align_banded_chain_impl.cpp | 18 +++++++ tests/seq_io/CMakeLists.txt | 8 +-- tests/sequence/CMakeLists.txt | 4 +- tests/sequence_journaled/CMakeLists.txt | 4 +- tests/simple_intervals_io/CMakeLists.txt | 4 +- tests/statistics/CMakeLists.txt | 4 +- tests/store/CMakeLists.txt | 6 ++- tests/stream/CMakeLists.txt | 8 +-- tests/swift_local/CMakeLists.txt | 4 +- tests/tabix_io/CMakeLists.txt | 6 ++- tests/translation/CMakeLists.txt | 6 ++- tests/ucsc_io/CMakeLists.txt | 4 +- tests/vcf_io/CMakeLists.txt | 4 +- util/cmake/SeqAnBuildSystem.cmake | 17 ++++-- 102 files changed, 692 insertions(+), 157 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/seqan2.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
