dgit.raspbian.org Git - ncbi-blast+.git/commit

author	Aaron M. Ucko <ucko@debian.org>
	Fri, 26 Jul 2024 00:02:52 +0000 (20:02 -0400)
committer	Aaron M. Ucko <ucko@debian.org>
	Fri, 26 Jul 2024 00:02:52 +0000 (20:02 -0400)
commit	e69e9a2f4c6f482245434666ca15379112a6cdfe
tree	6489c82294ae1063eef06ac87ee64dfb61a9da79	tree \| snapshot
parent	67807fe08f09dc9e351c079626e9a84559c19386	commit \| diff

New upstream version 2.16.0+ds

658 files changed:

c++/compilers/xcode30_prj/postbuild.sh		diff \| blob \| history
c++/include/algo/blast/api/blast_dbindex.hpp		diff \| blob \| history
c++/include/algo/blast/api/blast_exception.hpp		diff \| blob \| history
c++/include/algo/blast/api/blast_node.hpp		diff \| blob \| history
c++/include/algo/blast/api/cdd_pssm_input.hpp		diff \| blob \| history
c++/include/algo/blast/blastinput/blast_args.hpp		diff \| blob \| history
c++/include/algo/blast/core/blast_message.h		diff \| blob \| history
c++/include/algo/blast/core/blast_options.h		diff \| blob \| history
c++/include/algo/blast/dbindex/dbindex.hpp		diff \| blob \| history
c++/include/algo/blast/format/data4xmlformat.hpp		diff \| blob \| history
c++/include/algo/blast/proteinkmer/mhfile.hpp		diff \| blob \| history
c++/include/algo/blast/vdb/blastn_vdb_args.hpp		diff \| blob \| history
c++/include/algo/blast/vdb/seqsrc_vdb.h		diff \| blob \| history
c++/include/algo/blast/vdb/vdb2blast_util.hpp		diff \| blob \| history
c++/include/algo/blast/vdb/vdbblast_local.hpp		diff \| blob \| history
c++/include/cgi/caf_encoded.hpp	[new file with mode: 0644]	blob
c++/include/cgi/caf_plain.hpp	[new file with mode: 0644]	blob
c++/include/cgi/cgi_exception.hpp		diff \| blob \| history
c++/include/common/ncbi_export.h		diff \| blob \| history
c++/include/common/ncbi_package_ver.h		diff \| blob \| history
c++/include/common/ncbi_source_ver.h		diff \| blob \| history
c++/include/connect/impl/connect_misc.hpp		diff \| blob \| history
c++/include/connect/impl/ncbi_uv_nghttp2.hpp		diff \| blob \| history
c++/include/corelib/request_status.hpp		diff \| blob \| history
c++/include/misc/jsonwrapp/jsonwrapp11.hpp		diff \| blob \| history
c++/include/ncbi_pch.hpp		diff \| blob \| history
c++/include/ncbi_source_ver.h		diff \| blob \| history
c++/include/ncbiconf.h		diff \| blob \| history
c++/include/objects/general/Dbtag.hpp		diff \| blob \| history
c++/include/objects/seqfeat/OrgMod.hpp		diff \| blob \| history
c++/include/objects/seqfeat/SubSource.hpp		diff \| blob \| history
c++/include/objects/seqloc/Seq_id.hpp		diff \| blob \| history
c++/include/objects/valerr/ValidErrItem.hpp		diff \| blob \| history
c++/include/objects/valerr/ValidError.hpp		diff \| blob \| history
c++/include/objtools/align_format/align_format_util.hpp		diff \| blob \| history
c++/include/objtools/align_format/showalign.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_reader/impl/seqdbatlas.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_reader/impl/seqdbgeneral.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_reader/impl/seqdbisam.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_reader/impl/seqdbvol.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_writer/build_db.hpp		diff \| blob \| history
c++/include/objtools/blast/seqdb_writer/writedb.hpp		diff \| blob \| history
c++/include/objtools/cleanup/capitalization_string.hpp		diff \| blob \| history
c++/include/objtools/cleanup/cleanup.hpp		diff \| blob \| history
c++/include/objtools/cleanup/cleanup_change.hpp		diff \| blob \| history
c++/include/objtools/cleanup/huge_file_cleanup.hpp	[deleted file]	blob \| history
c++/include/objtools/cleanup/influenza_set.hpp	[new file with mode: 0644]	blob
c++/include/objtools/data_loaders/genbank/gbloader.hpp		diff \| blob \| history
c++/include/objtools/data_loaders/genbank/gbnative.hpp		diff \| blob \| history
c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp		diff \| blob \| history
c++/include/objtools/data_loaders/genbank/impl/psg_loader_impl.hpp		diff \| blob \| history
c++/include/objtools/data_loaders/genbank/psg_loader.hpp		diff \| blob \| history
c++/include/objtools/data_loaders/genbank/reader.hpp		diff \| blob \| history
c++/include/objtools/edit/eutils_updater.hpp		diff \| blob \| history
c++/include/objtools/edit/feattable_edit.hpp		diff \| blob \| history
c++/include/objtools/edit/huge_asn_loader.hpp		diff \| blob \| history
c++/include/objtools/edit/huge_asn_macro_reader.hpp	[deleted file]	blob \| history
c++/include/objtools/edit/huge_asn_reader.hpp		diff \| blob \| history
c++/include/objtools/edit/huge_file.hpp		diff \| blob \| history
c++/include/objtools/edit/huge_file_process.hpp		diff \| blob \| history
c++/include/objtools/edit/pub_fix.hpp		diff \| blob \| history
c++/include/objtools/edit/pubmed_updater.hpp		diff \| blob \| history
c++/include/objtools/edit/remote_updater.hpp		diff \| blob \| history
c++/include/objtools/format/flat_file_config.hpp		diff \| blob \| history
c++/include/objtools/format/items/source_item.hpp		diff \| blob \| history
c++/include/objtools/pubseq_gateway/client/impl/misc.hpp		diff \| blob \| history
c++/include/objtools/pubseq_gateway/client/psg_client.hpp		diff \| blob \| history
c++/include/objtools/readers/agp_util.hpp		diff \| blob \| history
c++/include/objtools/readers/fasta.hpp		diff \| blob \| history
c++/include/objtools/readers/fasta_exception.hpp		diff \| blob \| history
c++/include/objtools/readers/gtf_reader.hpp		diff \| blob \| history
c++/include/objtools/readers/line_error.hpp		diff \| blob \| history
c++/include/objtools/readers/message_listener.hpp		diff \| blob \| history
c++/include/objtools/readers/readfeat.hpp		diff \| blob \| history
c++/include/sra/data_loaders/bam/impl/bamloader_impl.hpp		diff \| blob \| history
c++/include/util/bitset/bm.h		diff \| blob \| history
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c++/include/util/bitset/bmsparsevec_parallel.h		diff \| blob \| history
c++/include/util/bitset/bmsparsevec_serial.h		diff \| blob \| history
c++/include/util/bitset/bmsse4.h		diff \| blob \| history
c++/include/util/bitset/bmstrsparsevec.h		diff \| blob \| history
c++/include/util/bitset/encoding.h		diff \| blob \| history
c++/include/util/stream_source.hpp		diff \| blob \| history
c++/scripts/common/check/check_exec.sh		diff \| blob \| history
c++/scripts/common/check/check_exec_test.sh		diff \| blob \| history
c++/scripts/common/check/check_make_cfg.sh		diff \| blob \| history
c++/scripts/common/check/check_make_unix.sh		diff \| blob \| history
c++/scripts/common/check/check_make_unix_cmake.sh		diff \| blob \| history
c++/scripts/common/check/check_run.sh		diff \| blob \| history
c++/scripts/common/check/retry_db_load.sh	[new file with mode: 0755]	blob
c++/scripts/common/impl/install.sh		diff \| blob \| history
c++/scripts/common/impl/ncbicxx_build_info.py		diff \| blob \| history
c++/scripts/common/new_cmake_project.sh		diff \| blob \| history
c++/scripts/projects/blast/Manifest		diff \| blob \| history
c++/scripts/projects/blast/post_build/blast_utils.py		diff \| blob \| history
c++/scripts/projects/blast/post_build/macosx/build_universal_binary.sh	[new file with mode: 0755]	blob
c++/scripts/projects/blast/post_build/macosx/ncbi-blast.sh		diff \| blob \| history
c++/scripts/projects/blast/post_build/macosx/uninstall_ncbi_blast.zip		diff \| blob \| history
c++/scripts/projects/blast/post_build/macosx/uninstaller/build_uninstaller.sh	[new file with mode: 0755]	blob
c++/scripts/projects/blast/post_build/macosx/uninstaller/uninstall_ncbi_blast.applescript	[new file with mode: 0644]	blob
c++/scripts/projects/blast/post_build/make_installers.py		diff \| blob \| history
c++/scripts/projects/blast/post_build/rpm/ncbi-blast.spec		diff \| blob \| history
c++/scripts/projects/blast/project.lst		diff \| blob \| history
c++/scripts/projects/cobalt/post_build/blast_utils.py		diff \| blob \| history
c++/scripts/projects/cobalt/post_build/make_installers.py		diff \| blob \| history
c++/scripts/projects/datatool/ChangeLog		diff \| blob \| history
c++/scripts/projects/datatool/Manifest		diff \| blob \| history
c++/scripts/projects/datatool/components.link		diff \| blob \| history
c++/scripts/projects/dispatcher/ChangeLog	[deleted file]	blob \| history
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c++/scripts/projects/igblast/Manifest		diff \| blob \| history
c++/scripts/projects/igblast/post_build/blast_utils.py		diff \| blob \| history
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c++/scripts/projects/lbsbd/ChangeLog	[deleted file]	blob \| history
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c++/scripts/projects/magicblast/Manifest		diff \| blob \| history
c++/scripts/projects/magicblast/post_build/blast_utils.py		diff \| blob \| history
c++/scripts/projects/magicblast/post_build/make_installers.py		diff \| blob \| history
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c++/scripts/projects/mod_caf/ChangeLog	[deleted file]	blob \| history
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c++/scripts/projects/ncbi_applog/ChangeLog		diff \| blob \| history
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c++/scripts/projects/project_tree_builder/Manifest		diff \| blob \| history
c++/scripts/projects/project_tree_builder/components.link		diff \| blob \| history
c++/scripts/projects/psg_client/Manifest		diff \| blob \| history
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c++/scripts/projects/pubseq_gateway/Manifest		diff \| blob \| history
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c++/scripts/projects/xmlwrapp/Manifest		diff \| blob \| history
c++/src/CMakeLists.txt		diff \| blob \| history
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c++/src/algo/blast/api/bioseq_extract_data_priv.cpp		diff \| blob \| history
c++/src/algo/blast/api/blast_aux_priv.cpp		diff \| blob \| history
c++/src/algo/blast/api/blast_dbindex.cpp		diff \| blob \| history
c++/src/algo/blast/api/blast_seqalign.cpp		diff \| blob \| history
c++/src/algo/blast/api/blast_setup_cxx.cpp		diff \| blob \| history
c++/src/algo/blast/api/cdd_pssm_input.cpp		diff \| blob \| history
c++/src/algo/blast/api/deltablast.cpp		diff \| blob \| history
c++/src/algo/blast/api/effsearchspace_calc.cpp		diff \| blob \| history
c++/src/algo/blast/api/local_blast.cpp		diff \| blob \| history
c++/src/algo/blast/api/magicblast.cpp		diff \| blob \| history
c++/src/algo/blast/api/msa_pssm_input.cpp		diff \| blob \| history
c++/src/algo/blast/api/objmgr_query_data.cpp		diff \| blob \| history
c++/src/algo/blast/api/objmgrfree_query_data.cpp		diff \| blob \| history
c++/src/algo/blast/api/prelim_search_runner.hpp		diff \| blob \| history
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c++/src/algo/blast/api/psi_pssm_input.cpp		diff \| blob \| history
c++/src/algo/blast/api/psiblast_impl.cpp		diff \| blob \| history
c++/src/algo/blast/api/remote_blast.cpp		diff \| blob \| history
c++/src/algo/blast/api/rpsblast_local.cpp		diff \| blob \| history
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