Date: Mon, 6 Oct 2014 20:16:35 +0000 (UTC) From: John Marino <marino@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r370220 - in head/biology: . ncbi-blast Message-ID: <201410062016.s96KGZP8084850@svn.freebsd.org>
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Author: marino Date: Mon Oct 6 20:16:35 2014 New Revision: 370220 URL: https://svnweb.freebsd.org/changeset/ports/370220 QAT: https://qat.redports.org/buildarchive/r370220/ Log: Add new port biology/ncbi-blast PR: 190854 Submitted by: Jason Bacon The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. Added: head/biology/ncbi-blast/ head/biology/ncbi-blast/Makefile (contents, props changed) head/biology/ncbi-blast/distinfo (contents, props changed) head/biology/ncbi-blast/pkg-descr (contents, props changed) head/biology/ncbi-blast/pkg-plist (contents, props changed) Modified: head/biology/Makefile Modified: head/biology/Makefile ============================================================================== --- head/biology/Makefile Mon Oct 6 20:16:21 2014 (r370219) +++ head/biology/Makefile Mon Oct 6 20:16:35 2014 (r370220) @@ -40,6 +40,7 @@ SUBDIR += mrbayes SUBDIR += mummer SUBDIR += muscle + SUBDIR += ncbi-blast SUBDIR += ncbi-toolkit SUBDIR += njplot SUBDIR += ortep3 Added: head/biology/ncbi-blast/Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/ncbi-blast/Makefile Mon Oct 6 20:16:35 2014 (r370220) @@ -0,0 +1,56 @@ +# Created by: Jason Bacon <jwbacon@tds.net> +# $FreeBSD$ + +PORTNAME= blast +PORTVERSION= 2.2.30 +CATEGORIES= biology +MASTER_SITES= http://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${PORTVERSION}/ +PKGNAMEPREFIX= ncbi +DISTNAME= ncbi-blast-${PORTVERSION}+-src + +MAINTAINER= jwbacon@tds.net +COMMENT= NCBI implementation of Basic Local Alignment Search Tool + +LICENSE= Public_domain +LICENSE_NAME= Public Domain +LICENSE_FILE= ${WRKSRC}/scripts/projects/blast/LICENSE +LICENSE_PERMS= dist-mirror dist-sell pkg-mirror pkg-sell auto-accept + +LIB_DEPENDS= libpcre.so:${PORTSDIR}/devel/pcre \ + libbz2.so:${PORTSDIR}/archivers/bzip2 + +WRKSRC= ${WRKDIR}/${DISTNAME}/c++ + +GNU_CONFIGURE= yes +USES= gmake shebangfix perl5 python +SHEBANG_FILES= src/app/blast/legacy_blast.pl \ + src/app/blast/update_blastdb.pl \ + src/app/winmasker/windowmasker_2.2.22_adapter.py + +# Requires openmp +USE_GCC= yes +USE_LDCONFIG= yes + +# The test for amq can hang, but amq is not needed so just avoid the test +CONFIGURE_ENV= ncbi_cv_prog_amq_w=no + +# configure chooses /usr/local/bin/ar with no flags +# FreeBSD boost port flagged by configure as untested version +CONFIGURE_ARGS+=AR="ar cr" --without-boost + +# Fix "undefined _ThreadRuneLocale" error on 10.0 +# Fix unknown options in configure +# Add staging support to configure-generated Makefile +post-patch: + ${REINPLACE_CMD} \ + -e 's|-D_THREAD_SAFE|-D_THREAD_SAFE -D__RUNETYPE_INTERNAL|' \ + -e '/--infodir=DIR/d' \ + -e '/--mandir=DIR/d' \ + ${WRKSRC}/src/build-system/configure + ${REINPLACE_CMD} -e 's|@prefix@|${STAGEDIR}@prefix@|g' \ + ${WRKSRC}/src/build-system/Makefile.in.top + +post-install: + ${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/*.so + +.include <bsd.port.mk> Added: head/biology/ncbi-blast/distinfo ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/ncbi-blast/distinfo Mon Oct 6 20:16:35 2014 (r370220) @@ -0,0 +1,2 @@ +SHA256 (ncbi-blast-2.2.30+-src.tar.gz) = 7baa46cf761febf2660ddd9a8f9b5b02d12a3413561a554d2f85d4628a25aaa3 +SIZE (ncbi-blast-2.2.30+-src.tar.gz) = 18937894 Added: head/biology/ncbi-blast/pkg-descr ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/ncbi-blast/pkg-descr Mon Oct 6 20:16:35 2014 (r370220) @@ -0,0 +1,8 @@ +The Basic Local Alignment Search Tool (BLAST) finds regions of local +similarity between sequences. The program compares nucleotide or protein +sequences to sequence databases and calculates the statistical +significance of matches. BLAST can be used to infer functional and +evolutionary relationships between sequences as well as help identify +members of gene families. + +WWW: http://blast.ncbi.nlm.nih.gov Added: head/biology/ncbi-blast/pkg-plist ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/ncbi-blast/pkg-plist Mon Oct 6 20:16:35 2014 (r370220) @@ -0,0 +1,3894 @@ +bin/blast_formatter +bin/blastdb_aliastool +bin/blastdbcheck +bin/blastdbcmd +bin/blastdbcp +bin/blastn +bin/blastp +bin/blastx +bin/convert2blastmask +bin/datatool +bin/deltablast +bin/dustmasker +bin/gene_info_reader +bin/legacy_blast.pl +bin/makeblastdb +bin/makembindex +bin/makeprofiledb +bin/project_tree_builder +bin/psiblast +bin/rpsblast +bin/rpstblastn +bin/seedtop +bin/segmasker +bin/seqdb_demo +bin/seqdb_perf +bin/tblastn +bin/tblastx +bin/update_blastdb.pl +bin/windowmasker +bin/windowmasker_2.2.22_adapter.py +include/ncbi-tools++/algo/blast/api/bl2seq.hpp +include/ncbi-tools++/algo/blast/api/blast_advprot_options.hpp +include/ncbi-tools++/algo/blast/api/blast_aux.hpp +include/ncbi-tools++/algo/blast/api/blast_dbindex.hpp +include/ncbi-tools++/algo/blast/api/blast_exception.hpp +include/ncbi-tools++/algo/blast/api/blast_mtlock.hpp +include/ncbi-tools++/algo/blast/api/blast_nucl_options.hpp +include/ncbi-tools++/algo/blast/api/blast_options.hpp +include/ncbi-tools++/algo/blast/api/blast_options_builder.hpp +include/ncbi-tools++/algo/blast/api/blast_options_handle.hpp +include/ncbi-tools++/algo/blast/api/blast_prot_options.hpp +include/ncbi-tools++/algo/blast/api/blast_results.hpp +include/ncbi-tools++/algo/blast/api/blast_rps_options.hpp +include/ncbi-tools++/algo/blast/api/blast_seqinfosrc.hpp +include/ncbi-tools++/algo/blast/api/blast_seqinfosrc_aux.hpp +include/ncbi-tools++/algo/blast/api/blast_types.hpp +include/ncbi-tools++/algo/blast/api/blastx_options.hpp +include/ncbi-tools++/algo/blast/api/cdd_pssm_input.hpp +include/ncbi-tools++/algo/blast/api/deltablast.hpp +include/ncbi-tools++/algo/blast/api/deltablast_options.hpp +include/ncbi-tools++/algo/blast/api/disc_nucl_options.hpp +include/ncbi-tools++/algo/blast/api/effsearchspace_calc.hpp +include/ncbi-tools++/algo/blast/api/hspstream_queue.hpp +include/ncbi-tools++/algo/blast/api/local_blast.hpp +include/ncbi-tools++/algo/blast/api/local_db_adapter.hpp +include/ncbi-tools++/algo/blast/api/local_search.hpp +include/ncbi-tools++/algo/blast/api/msa_pssm_input.hpp +include/ncbi-tools++/algo/blast/api/objmgr_query_data.hpp +include/ncbi-tools++/algo/blast/api/objmgrfree_query_data.hpp +include/ncbi-tools++/algo/blast/api/phiblast_nucl_options.hpp +include/ncbi-tools++/algo/blast/api/phiblast_prot_options.hpp +include/ncbi-tools++/algo/blast/api/prelim_stage.hpp +include/ncbi-tools++/algo/blast/api/psi_pssm_input.hpp +include/ncbi-tools++/algo/blast/api/psibl2seq.hpp +include/ncbi-tools++/algo/blast/api/psiblast.hpp +include/ncbi-tools++/algo/blast/api/psiblast_iteration.hpp +include/ncbi-tools++/algo/blast/api/psiblast_options.hpp +include/ncbi-tools++/algo/blast/api/pssm_engine.hpp +include/ncbi-tools++/algo/blast/api/pssm_input.hpp +include/ncbi-tools++/algo/blast/api/query_data.hpp +include/ncbi-tools++/algo/blast/api/remote_blast.hpp +include/ncbi-tools++/algo/blast/api/remote_search.hpp +include/ncbi-tools++/algo/blast/api/repeats_filter.hpp +include/ncbi-tools++/algo/blast/api/rps_aux.hpp +include/ncbi-tools++/algo/blast/api/rpsblast_local.hpp +include/ncbi-tools++/algo/blast/api/rpstblastn_options.hpp +include/ncbi-tools++/algo/blast/api/search_strategy.hpp +include/ncbi-tools++/algo/blast/api/seedtop.hpp +include/ncbi-tools++/algo/blast/api/seqinfosrc_seqdb.hpp +include/ncbi-tools++/algo/blast/api/seqinfosrc_seqvec.hpp +include/ncbi-tools++/algo/blast/api/seqsrc_multiseq.hpp +include/ncbi-tools++/algo/blast/api/seqsrc_seqdb.hpp +include/ncbi-tools++/algo/blast/api/setup_factory.hpp +include/ncbi-tools++/algo/blast/api/sseqloc.hpp +include/ncbi-tools++/algo/blast/api/subj_ranges_set.hpp +include/ncbi-tools++/algo/blast/api/tblastn_options.hpp +include/ncbi-tools++/algo/blast/api/tblastx_options.hpp +include/ncbi-tools++/algo/blast/api/traceback_stage.hpp +include/ncbi-tools++/algo/blast/api/uniform_search.hpp +include/ncbi-tools++/algo/blast/api/version.hpp +include/ncbi-tools++/algo/blast/api/windowmask_filter.hpp +include/ncbi-tools++/algo/blast/blastinput/blast_args.hpp +include/ncbi-tools++/algo/blast/blastinput/blast_fasta_input.hpp +include/ncbi-tools++/algo/blast/blastinput/blast_input.hpp +include/ncbi-tools++/algo/blast/blastinput/blast_input_aux.hpp +include/ncbi-tools++/algo/blast/blastinput/blast_scope_src.hpp +include/ncbi-tools++/algo/blast/blastinput/blastn_args.hpp +include/ncbi-tools++/algo/blast/blastinput/blastp_args.hpp +include/ncbi-tools++/algo/blast/blastinput/blastx_args.hpp +include/ncbi-tools++/algo/blast/blastinput/cmdline_flags.hpp +include/ncbi-tools++/algo/blast/blastinput/deltablast_args.hpp +include/ncbi-tools++/algo/blast/blastinput/igblastn_args.hpp +include/ncbi-tools++/algo/blast/blastinput/igblastp_args.hpp +include/ncbi-tools++/algo/blast/blastinput/psiblast_args.hpp +include/ncbi-tools++/algo/blast/blastinput/rmblastn_args.hpp +include/ncbi-tools++/algo/blast/blastinput/rpsblast_args.hpp +include/ncbi-tools++/algo/blast/blastinput/rpstblastn_args.hpp +include/ncbi-tools++/algo/blast/blastinput/tblastn_args.hpp +include/ncbi-tools++/algo/blast/blastinput/tblastx_args.hpp +include/ncbi-tools++/algo/blast/composition_adjustment/compo_heap.h +include/ncbi-tools++/algo/blast/composition_adjustment/compo_mode_condition.h +include/ncbi-tools++/algo/blast/composition_adjustment/composition_adjustment.h +include/ncbi-tools++/algo/blast/composition_adjustment/composition_constants.h +include/ncbi-tools++/algo/blast/composition_adjustment/matrix_frequency_data.h +include/ncbi-tools++/algo/blast/composition_adjustment/nlm_linear_algebra.h +include/ncbi-tools++/algo/blast/composition_adjustment/optimize_target_freq.h +include/ncbi-tools++/algo/blast/composition_adjustment/redo_alignment.h +include/ncbi-tools++/algo/blast/composition_adjustment/smith_waterman.h +include/ncbi-tools++/algo/blast/composition_adjustment/unified_pvalues.h +include/ncbi-tools++/algo/blast/core/aa_ungapped.h +include/ncbi-tools++/algo/blast/core/blast_aalookup.h +include/ncbi-tools++/algo/blast/core/blast_aascan.h +include/ncbi-tools++/algo/blast/core/blast_def.h +include/ncbi-tools++/algo/blast/core/blast_diagnostics.h +include/ncbi-tools++/algo/blast/core/blast_encoding.h +include/ncbi-tools++/algo/blast/core/blast_engine.h +include/ncbi-tools++/algo/blast/core/blast_export.h +include/ncbi-tools++/algo/blast/core/blast_extend.h +include/ncbi-tools++/algo/blast/core/blast_filter.h +include/ncbi-tools++/algo/blast/core/blast_gapalign.h +include/ncbi-tools++/algo/blast/core/blast_hits.h +include/ncbi-tools++/algo/blast/core/blast_hspfilter.h +include/ncbi-tools++/algo/blast/core/blast_hspstream.h +include/ncbi-tools++/algo/blast/core/blast_kappa.h +include/ncbi-tools++/algo/blast/core/blast_lookup.h +include/ncbi-tools++/algo/blast/core/blast_message.h +include/ncbi-tools++/algo/blast/core/blast_nalookup.h +include/ncbi-tools++/algo/blast/core/blast_nascan.h +include/ncbi-tools++/algo/blast/core/blast_options.h +include/ncbi-tools++/algo/blast/core/blast_parameters.h +include/ncbi-tools++/algo/blast/core/blast_program.h +include/ncbi-tools++/algo/blast/core/blast_psi.h +include/ncbi-tools++/algo/blast/core/blast_query_info.h +include/ncbi-tools++/algo/blast/core/blast_rps.h +include/ncbi-tools++/algo/blast/core/blast_seg.h +include/ncbi-tools++/algo/blast/core/blast_seqsrc.h +include/ncbi-tools++/algo/blast/core/blast_seqsrc_impl.h +include/ncbi-tools++/algo/blast/core/blast_setup.h +include/ncbi-tools++/algo/blast/core/blast_stat.h +include/ncbi-tools++/algo/blast/core/blast_sw.h +include/ncbi-tools++/algo/blast/core/blast_toolkit.h +include/ncbi-tools++/algo/blast/core/blast_traceback.h +include/ncbi-tools++/algo/blast/core/blast_tune.h +include/ncbi-tools++/algo/blast/core/blast_util.h +include/ncbi-tools++/algo/blast/core/gapinfo.h +include/ncbi-tools++/algo/blast/core/gencode_singleton.h +include/ncbi-tools++/algo/blast/core/greedy_align.h +include/ncbi-tools++/algo/blast/core/hspfilter_besthit.h +include/ncbi-tools++/algo/blast/core/hspfilter_collector.h +include/ncbi-tools++/algo/blast/core/hspfilter_culling.h +include/ncbi-tools++/algo/blast/core/link_hsps.h +include/ncbi-tools++/algo/blast/core/lookup_util.h +include/ncbi-tools++/algo/blast/core/lookup_wrap.h +include/ncbi-tools++/algo/blast/core/mb_indexed_lookup.h +include/ncbi-tools++/algo/blast/core/na_ungapped.h +include/ncbi-tools++/algo/blast/core/ncbi_math.h +include/ncbi-tools++/algo/blast/core/ncbi_std.h +include/ncbi-tools++/algo/blast/core/pattern.h +include/ncbi-tools++/algo/blast/core/phi_extend.h +include/ncbi-tools++/algo/blast/core/phi_gapalign.h +include/ncbi-tools++/algo/blast/core/phi_lookup.h +include/ncbi-tools++/algo/blast/core/split_query.h +include/ncbi-tools++/algo/blast/dbindex/dbindex.hpp +include/ncbi-tools++/algo/blast/dbindex/dbindex_sp.hpp +include/ncbi-tools++/algo/blast/dbindex/sequence_istream.hpp +include/ncbi-tools++/algo/blast/dbindex/sequence_istream_bdb.hpp +include/ncbi-tools++/algo/blast/dbindex/sequence_istream_fasta.hpp +include/ncbi-tools++/algo/blast/format/blast_format.hpp +include/ncbi-tools++/algo/blast/format/blastfmtutil.hpp +include/ncbi-tools++/algo/blast/format/blastxml2_format.hpp +include/ncbi-tools++/algo/blast/format/blastxml_format.hpp +include/ncbi-tools++/algo/blast/format/build_archive.hpp +include/ncbi-tools++/algo/blast/format/data4xml2format.hpp +include/ncbi-tools++/algo/blast/format/data4xmlformat.hpp +include/ncbi-tools++/algo/blast/format/vecscreen_run.hpp +include/ncbi-tools++/algo/blast/igblast/igblast.hpp +include/ncbi-tools++/algo/dustmask/sdust.tex +include/ncbi-tools++/algo/dustmask/symdust.hpp +include/ncbi-tools++/algo/segmask/segmask.hpp +include/ncbi-tools++/algo/winmask/README.API +include/ncbi-tools++/algo/winmask/seq_masker.hpp +include/ncbi-tools++/algo/winmask/seq_masker_cache_boost.hpp +include/ncbi-tools++/algo/winmask/seq_masker_istat.hpp +include/ncbi-tools++/algo/winmask/seq_masker_istat_ascii.hpp +include/ncbi-tools++/algo/winmask/seq_masker_istat_bin.hpp +include/ncbi-tools++/algo/winmask/seq_masker_istat_factory.hpp +include/ncbi-tools++/algo/winmask/seq_masker_istat_oascii.hpp +include/ncbi-tools++/algo/winmask/seq_masker_istat_obinary.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat_ascii.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat_bin.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat_factory.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat_opt.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat_opt_ascii.hpp +include/ncbi-tools++/algo/winmask/seq_masker_ostat_opt_bin.hpp +include/ncbi-tools++/algo/winmask/seq_masker_score.hpp +include/ncbi-tools++/algo/winmask/seq_masker_score_mean.hpp +include/ncbi-tools++/algo/winmask/seq_masker_score_mean_glob.hpp +include/ncbi-tools++/algo/winmask/seq_masker_score_min.hpp +include/ncbi-tools++/algo/winmask/seq_masker_uset_array.hpp +include/ncbi-tools++/algo/winmask/seq_masker_uset_hash.hpp +include/ncbi-tools++/algo/winmask/seq_masker_uset_simple.hpp +include/ncbi-tools++/algo/winmask/seq_masker_util.hpp +include/ncbi-tools++/algo/winmask/seq_masker_window.hpp +include/ncbi-tools++/algo/winmask/seq_masker_window_ambig.hpp +include/ncbi-tools++/algo/winmask/seq_masker_window_pattern.hpp +include/ncbi-tools++/algo/winmask/seq_masker_window_pattern_ambig.hpp +include/ncbi-tools++/algo/winmask/win_mask_config.hpp +include/ncbi-tools++/algo/winmask/win_mask_counts_converter.hpp +include/ncbi-tools++/algo/winmask/win_mask_dup_table.hpp +include/ncbi-tools++/algo/winmask/win_mask_gen_counts.hpp +include/ncbi-tools++/algo/winmask/win_mask_util.hpp +include/ncbi-tools++/cgi/caf.hpp +include/ncbi-tools++/cgi/caf_encoded.hpp +include/ncbi-tools++/cgi/caf_plain.hpp +include/ncbi-tools++/cgi/cgi_exception.hpp +include/ncbi-tools++/cgi/cgi_serial.hpp +include/ncbi-tools++/cgi/cgi_session.hpp +include/ncbi-tools++/cgi/cgi_util.hpp +include/ncbi-tools++/cgi/cgiapp.hpp +include/ncbi-tools++/cgi/cgiapp_cached.hpp +include/ncbi-tools++/cgi/cgictx.hpp +include/ncbi-tools++/cgi/error_codes.hpp +include/ncbi-tools++/cgi/impl/cgi_entry_reader.hpp +include/ncbi-tools++/cgi/ncbicgi.hpp +include/ncbi-tools++/cgi/ncbicgir.hpp +include/ncbi-tools++/cgi/ncbires.hpp +include/ncbi-tools++/cgi/ref_args.hpp +include/ncbi-tools++/cgi/user_agent.hpp +include/ncbi-tools++/common/config/ncbiconf_msvc.h +include/ncbi-tools++/common/config/ncbiconf_msvc_site.h +include/ncbi-tools++/common/config/ncbiconf_universal.h +include/ncbi-tools++/common/config/ncbiconf_xcode.h +include/ncbi-tools++/common/config/ncbiconf_xcode_site.h +include/ncbi-tools++/common/header_template.hpp +include/ncbi-tools++/common/metamodules_doxygen.h +include/ncbi-tools++/common/ncbi_export.h +include/ncbi-tools++/common/ncbi_package_ver.h +include/ncbi-tools++/common/ncbi_pch_impl.hpp +include/ncbi-tools++/common/ncbi_skew_guard.h +include/ncbi-tools++/common/ncbi_source_ver.h +include/ncbi-tools++/common/ncbiconf_impl.h +include/ncbi-tools++/common/test_assert.h +include/ncbi-tools++/common/test_assert_impl.h +include/ncbi-tools++/common/test_data_path.h +include/ncbi-tools++/connect/connect_export.h +include/ncbi-tools++/connect/email_diag_handler.hpp +include/ncbi-tools++/connect/error_codes.hpp +include/ncbi-tools++/connect/ext/ncbi_crypt.h +include/ncbi-tools++/connect/ext/ncbi_dblb.h +include/ncbi-tools++/connect/ext/ncbi_dblb_svcmapper.hpp +include/ncbi-tools++/connect/ext/ncbi_ifconf.h +include/ncbi-tools++/connect/ext/ncbi_iprange.h +include/ncbi-tools++/connect/ext/ncbi_localnet.h +include/ncbi-tools++/connect/impl/server_connection.hpp +include/ncbi-tools++/connect/impl/thread_pool_for_server.hpp +include/ncbi-tools++/connect/ncbi_base64.h +include/ncbi-tools++/connect/ncbi_buffer.h +include/ncbi-tools++/connect/ncbi_conn_exception.hpp +include/ncbi-tools++/connect/ncbi_conn_reader_writer.hpp +include/ncbi-tools++/connect/ncbi_conn_stream.hpp +include/ncbi-tools++/connect/ncbi_conn_test.hpp +include/ncbi-tools++/connect/ncbi_connection.h +include/ncbi-tools++/connect/ncbi_connector.h +include/ncbi-tools++/connect/ncbi_connutil.h +include/ncbi-tools++/connect/ncbi_core.h +include/ncbi-tools++/connect/ncbi_core_cxx.hpp +include/ncbi-tools++/connect/ncbi_file_connector.h +include/ncbi-tools++/connect/ncbi_ftp_connector.h +include/ncbi-tools++/connect/ncbi_gnutls.h +include/ncbi-tools++/connect/ncbi_heapmgr.h +include/ncbi-tools++/connect/ncbi_host_info.h +include/ncbi-tools++/connect/ncbi_http_connector.h +include/ncbi-tools++/connect/ncbi_http_session.hpp +include/ncbi-tools++/connect/ncbi_memory_connector.h +include/ncbi-tools++/connect/ncbi_misc.hpp +include/ncbi-tools++/connect/ncbi_namedpipe.hpp +include/ncbi-tools++/connect/ncbi_namedpipe_connector.hpp +include/ncbi-tools++/connect/ncbi_pipe.hpp +include/ncbi-tools++/connect/ncbi_pipe_connector.hpp +include/ncbi-tools++/connect/ncbi_sendmail.h +include/ncbi-tools++/connect/ncbi_server_info.h +include/ncbi-tools++/connect/ncbi_service.h +include/ncbi-tools++/connect/ncbi_service_connector.h +include/ncbi-tools++/connect/ncbi_socket.h +include/ncbi-tools++/connect/ncbi_socket.hpp 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+include/ncbi-tools++/objects/cn3d/Cn3d_drawing_style_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_general_style.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_general_style_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_molecule_location.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_molecule_location_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_object_location.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_object_location_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_residue_range.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_residue_range_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_dictionary.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_dictionary_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_settings.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_settings_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_settings_set.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_settings_set_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_table_id.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_table_id_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_table_item.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_style_table_item_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_user_annotation.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_user_annotation_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_user_annotations.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_user_annotations_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_vector.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_vector_.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_view_settings.hpp +include/ncbi-tools++/objects/cn3d/Cn3d_view_settings_.hpp +include/ncbi-tools++/objects/cn3d/NCBI_Cn3d_module.hpp +include/ncbi-tools++/objects/cn3d/cn3d__.hpp +include/ncbi-tools++/objects/coords/.cvsignore +include/ncbi-tools++/objects/coords/HGVS_Coordinate.hpp +include/ncbi-tools++/objects/coords/HGVS_Coordinate_.hpp +include/ncbi-tools++/objects/coords/HGVS_Coordinate_Set.hpp +include/ncbi-tools++/objects/coords/HGVS_Coordinate_Set_.hpp +include/ncbi-tools++/objects/coords/NCBI_HGVSCoordinate_module.hpp +include/ncbi-tools++/objects/coords/objcoords__.hpp *** DIFF OUTPUT TRUNCATED AT 1000 LINES ***
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