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	Index: biology/ncbi-blast+/Makefile
	===================================================================
	--- biology/ncbi-blast+/Makefile
	+++ biology/ncbi-blast+/Makefile
	@@ -1,12 +1,10 @@
	# $FreeBSD$

	-PORTNAME= blast+
	-PORTVERSION= 2.5.0
	-PORTREVISION= 3
	-CATEGORIES= biology
	-MASTER_SITES= http://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${PORTVERSION}/ \
	- http://acadix.biz/Ports/distfiles/
	-PKGNAMEPREFIX= ncbi-
	+PORTNAME= ncbi-blast+
	+DISTVERSION= 2.7.1
	+CATEGORIES= biology perl5 python
	+MASTER_SITES= https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/ \
	+ https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${PORTVERSION}/
	DISTNAME= ncbi-blast-${PORTVERSION}+-src

	MAINTAINER= jwb@FreeBSD.org
	@@ -15,43 +13,59 @@
	LICENSE= PD
	LICENSE_FILE= ${WRKSRC}/scripts/projects/blast/LICENSE

	-LIB_DEPENDS= libpcre.so:devel/pcre
	+LIB_DEPENDS= libpcre.so:devel/pcre \
	+ liblmdb.so:databases/lmdb \
	+ liblzo2.so:archivers/lzo2 \
	+ libgnutls.so:security/gnutls \
	+ libtspi.so:security/trousers \
	+ libgmp.so:math/gmp \
	+ libidn2.so:dns/libidn2 \
	+ libnettle.so:security/nettle \
	+ libhogweed.so:security/nettle \
	+ libtasn1.so:security/libtasn1 \
	+ libp11-kit.so:security/p11-kit \
	+ libgcrypt.so:security/libgcrypt \
	+ libgpg-error.so:security/libgpg-error \
	+ libsqlite3.so:databases/sqlite3
	RUN_DEPENDS= p5-List-MoreUtils>=0:lang/p5-List-MoreUtils

	-WRKSRC= ${WRKDIR}/${DISTNAME}/c++
	-
	-GNU_CONFIGURE= yes
	-USES= gmake shebangfix perl5 python
	+USES= compiler:openmp 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
	-
	-MAKE_JOBS_UNSAFE= yes
	-
	-# Requires openmp
	-USE_GCC= yes
	USE_LDCONFIG= yes
	+GNU_CONFIGURE= 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_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
	+# --libdir=${PREFIX}/lib/ncbi-tools++ doesn't respect DESTDIR, so do
	+# a postinstall mv.
	+CONFIGURE_ARGS+= AR="ar cr" \
	+ --without-boost
	+WRKSRC= ${WRKDIR}/${DISTNAME}/c++

	# Fix "undefined _ThreadRuneLocale" error on 10.0
	# Fix unknown options in configure
	# Add staging support to configure-generated Makefile
	post-patch:
	- ${REINPLACE_CMD} \
	+ @${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' \
	+ @${REINPLACE_CMD} -e 's\|@prefix@\|${STAGEDIR}@prefix@\|g' \
	${WRKSRC}/src/build-system/Makefile.in.top

	post-install:
	- ${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/*.so
	+ @${RM} ${STAGEDIR}${PREFIX}/include/ncbi-tools++///.cvsignore.extra
	+ @${MKDIR} ${STAGEDIR}${PREFIX}/lib/ncbi-tools++
	+ @${MV} ${STAGEDIR}${PREFIX}/lib/lib* \
	+ ${STAGEDIR}${PREFIX}/lib/X11 \
	+ ${STAGEDIR}${PREFIX}/lib/debug \
	+ ${STAGEDIR}${PREFIX}/lib/ncbi-tools++
	+ ${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/ncbi-tools++/*.so

	.include <bsd.port.mk>
	Index: biology/ncbi-blast+/distinfo
	===================================================================
	--- biology/ncbi-blast+/distinfo
	+++ biology/ncbi-blast+/distinfo
	@@ -1,3 +1,3 @@
	-TIMESTAMP = 1480648908
	-SHA256 (ncbi-blast-2.5.0+-src.tar.gz) = cce122a29d309127a478353856b351914232e78a9546941781ff0a4c18ec9c54
	-SIZE (ncbi-blast-2.5.0+-src.tar.gz) = 19938544
	+TIMESTAMP = 1518995346
	+SHA256 (ncbi-blast-2.7.1+-src.tar.gz) = 10a78d3007413a6d4c983d2acbf03ef84b622b82bd9a59c6bd9fbdde9d0298ca
	+SIZE (ncbi-blast-2.7.1+-src.tar.gz) = 23254824
	Index: biology/ncbi-blast+/files/patch-src_build-system_Makefile.in.top
	===================================================================
	--- biology/ncbi-blast+/files/patch-src_build-system_Makefile.in.top
	+++ /dev/null
	@@ -1,11 +0,0 @@
	---- src/build-system/Makefile.in.top.orig 2014-11-13 01:41:55.000000000 +0900
	-+++ src/build-system/Makefile.in.top 2016-12-02 16:39:58.415910000 +0900
	-@@ -51,7 +51,7 @@
	- done
	- cd $(includedir0) && find * -name CVS -prune -o -print \|\
	- cpio -pd $(pincludedir)
	-- $(INSTALL) -m 644 $(incdir)/* $(pincludedir)
	-+ cd $(incdir) && find * \| cpio -pd $(pincludedir)
	- ## set up appropriate build and status directories somewhere under $(libdir)?
	-
	- install-gbench:
	Index: biology/ncbi-blast+/files/patch-src_build-system_configure
	===================================================================
	--- biology/ncbi-blast+/files/patch-src_build-system_configure
	+++ biology/ncbi-blast+/files/patch-src_build-system_configure
	@@ -1,9 +1,9 @@
	---- src/build-system/configure.orig 2016-09-09 21:04:16.000000000 +0900
	-+++ src/build-system/configure 2016-12-02 15:04:04.258800000 +0900
	-@@ -1715,7 +1715,7 @@
	- \| --silent \| --cache-file=* \| -C \| --config-cache \| -n \| --no-create \
	- \| --no-recursion \| --prefix=* \| --exec-prefix=* \| --bindir=* \
	+--- src/build-system/configure.orig 2018-02-19 01:32:40 UTC
	++++ src/build-system/configure
	+@@ -1755,7 +1755,7 @@ for x_arg in "$@" ; do
	\| --libdir=* \| --includedir=* \| --build=* \| --host=* \| --target=* \
	+ \| --mandir=* \| --infodir=* \| --docdir=* \| --htmldir=* \
	+ \| --datadir=* \| --sysconfdir=* \| --localstatedir=* \
	- \| --with-runpath=* \| --with-relative-runpath=* \
	+ \| --with-runpath=* \| --with-relative-runpath=* \| --localstatedir=* \
	\| --with-experimental=* \| --with-extra-action=* \| --with-build-root=* \
	Index: biology/ncbi-blast+/pkg-descr
	===================================================================
	--- biology/ncbi-blast+/pkg-descr
	+++ biology/ncbi-blast+/pkg-descr
	@@ -1,8 +1,7 @@
	-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.
	+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
	Index: biology/ncbi-blast+/pkg-plist
	===================================================================
	--- biology/ncbi-blast+/pkg-plist
	+++ biology/ncbi-blast+/pkg-plist
	@@ -10,6 +10,7 @@
	bin/datatool
	bin/deltablast
	bin/dustmasker
	+bin/gc_cli
	bin/gene_info_reader
	bin/legacy_blast.pl
	bin/makeblastdb
	@@ -45,6 +46,7 @@
	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/blastp_kmer_options.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
	@@ -105,6 +107,7 @@
	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/kblastp_args.hpp
	include/ncbi-tools++/algo/blast/blastinput/magicblast_args.hpp
	include/ncbi-tools++/algo/blast/blastinput/psiblast_args.hpp
	include/ncbi-tools++/algo/blast/blastinput/rmblastn_args.hpp
	@@ -175,12 +178,14 @@
	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/spliced_hits.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_async_format.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
	@@ -191,6 +196,13 @@
	include/ncbi-tools++/algo/blast/format/sam.hpp
	include/ncbi-tools++/algo/blast/format/vecscreen_run.hpp
	include/ncbi-tools++/algo/blast/igblast/igblast.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/blastkmer.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/blastkmerindex.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/blastkmeroptions.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/blastkmerresults.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/blastkmerutils.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/kblastapi.hpp
	+include/ncbi-tools++/algo/blast/proteinkmer/mhfile.hpp
	include/ncbi-tools++/algo/dustmask/sdust.tex
	include/ncbi-tools++/algo/dustmask/symdust.hpp
	include/ncbi-tools++/algo/segmask/segmask.hpp
	@@ -284,7 +296,11 @@
	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_iprange.h
	+include/ncbi-tools++/connect/ncbi_ipv6.h
	include/ncbi-tools++/connect/ncbi_lbos.hpp
	+include/ncbi-tools++/connect/ncbi_localip.h
	+include/ncbi-tools++/connect/ncbi_mbedtls.h
	include/ncbi-tools++/connect/ncbi_memory_connector.h
	include/ncbi-tools++/connect/ncbi_misc.hpp
	include/ncbi-tools++/connect/ncbi_monkey.hpp
	@@ -301,6 +317,7 @@
	include/ncbi-tools++/connect/ncbi_socket_connector.h
	include/ncbi-tools++/connect/ncbi_socket_unix.h
	include/ncbi-tools++/connect/ncbi_socket_unix.hpp
	+include/ncbi-tools++/connect/ncbi_tls.h
	include/ncbi-tools++/connect/ncbi_types.h
	include/ncbi-tools++/connect/ncbi_userhost.hpp
	include/ncbi-tools++/connect/ncbi_util.h
	@@ -327,6 +344,7 @@
	include/ncbi-tools++/connect/services/netcache_api.hpp
	include/ncbi-tools++/connect/services/netcache_api_expt.hpp
	include/ncbi-tools++/connect/services/netcache_key.hpp
	+include/ncbi-tools++/connect/services/netcache_search.hpp
	include/ncbi-tools++/connect/services/netcomponent.hpp
	include/ncbi-tools++/connect/services/neticache_client.hpp
	include/ncbi-tools++/connect/services/netschedule_api.hpp
	@@ -337,7 +355,6 @@
	include/ncbi-tools++/connect/services/netservice_protocol_parser.hpp
	include/ncbi-tools++/connect/services/netstorage.hpp
	include/ncbi-tools++/connect/services/netstorage_ft.hpp
	-include/ncbi-tools++/connect/services/netstorage_impl.hpp
	include/ncbi-tools++/connect/services/ns_client_factory.hpp
	include/ncbi-tools++/connect/services/ns_job_serializer.hpp
	include/ncbi-tools++/connect/services/ns_output_parser.hpp
	@@ -446,10 +463,13 @@
	include/ncbi-tools++/corelib/rwstream.hpp
	include/ncbi-tools++/corelib/stream_utils.hpp
	include/ncbi-tools++/corelib/syslog.hpp
	+include/ncbi-tools++/corelib/teamcity_messages.h
	include/ncbi-tools++/corelib/tempstr.hpp
	include/ncbi-tools++/corelib/test_boost.hpp
	include/ncbi-tools++/corelib/test_mt.hpp
	include/ncbi-tools++/corelib/version.hpp
	+include/ncbi-tools++/db/error_codes.hpp
	+include/ncbi-tools++/db/sqlite/sqlitewrapp.hpp
	include/ncbi-tools++/dbapi/cache/dbapi_blob_cache.hpp
	include/ncbi-tools++/dbapi/dbapi.hpp
	include/ncbi-tools++/dbapi/dbapi_variant_convert.hpp
	@@ -506,15 +526,14 @@
	include/ncbi-tools++/html/writer_htmlenc.hpp
	include/ncbi-tools++/misc/error_codes.hpp
	include/ncbi-tools++/ncbi_pch.hpp
	+include/ncbi-tools++/ncbi_random_macro.h
	include/ncbi-tools++/ncbi_source_ver.h
	include/ncbi-tools++/ncbiconf.h
	include/ncbi-tools++/ncbiconf_unix.h
	-include/ncbi-tools++/objects/access/.cvsignore
	include/ncbi-tools++/objects/access/Link_set.hpp
	include/ncbi-tools++/objects/access/Link_set_.hpp
	include/ncbi-tools++/objects/access/NCBI_Access_module.hpp
	include/ncbi-tools++/objects/access/access__.hpp
	-include/ncbi-tools++/objects/biblio/.cvsignore
	include/ncbi-tools++/objects/biblio/Affil.hpp
	include/ncbi-tools++/objects/biblio/Affil_.hpp
	include/ncbi-tools++/objects/biblio/ArticleId.hpp
	@@ -577,7 +596,6 @@
	include/ncbi-tools++/objects/biblio/biblio__.hpp
	include/ncbi-tools++/objects/biblio/biblio_macros.hpp
	include/ncbi-tools++/objects/biblio/citation_base.hpp
	-include/ncbi-tools++/objects/biotree/.cvsignore
	include/ncbi-tools++/objects/biotree/BioTreeContainer.hpp
	include/ncbi-tools++/objects/biotree/BioTreeContainer_.hpp
	include/ncbi-tools++/objects/biotree/DistanceMatrix.hpp
	@@ -596,8 +614,6 @@
	include/ncbi-tools++/objects/biotree/NodeSet_.hpp
	include/ncbi-tools++/objects/biotree/Node_.hpp
	include/ncbi-tools++/objects/biotree/biotree__.hpp
	-include/ncbi-tools++/objects/blast/.cvsignore
	-include/ncbi-tools++/objects/blast/.cvsignore.extra
	include/ncbi-tools++/objects/blast/Blas_get_searc_resul_reply.hpp
	include/ncbi-tools++/objects/blast/Blas_get_searc_resul_reply_.hpp
	include/ncbi-tools++/objects/blast/Blas_get_searc_resul_reque.hpp
	@@ -727,7 +743,6 @@
	include/ncbi-tools++/objects/blast/blastclient.hpp
	include/ncbi-tools++/objects/blast/blastclient_.hpp
	include/ncbi-tools++/objects/blast/names.hpp
	-include/ncbi-tools++/objects/blastdb/.cvsignore
	include/ncbi-tools++/objects/blastdb/Blast_db_mask_info.hpp
	include/ncbi-tools++/objects/blastdb/Blast_db_mask_info_.hpp
	include/ncbi-tools++/objects/blastdb/Blast_def_line.hpp
	@@ -741,7 +756,6 @@
	include/ncbi-tools++/objects/blastdb/NCBI_BlastDL_module.hpp
	include/ncbi-tools++/objects/blastdb/blastdb__.hpp
	include/ncbi-tools++/objects/blastdb/defline_extra.hpp
	-include/ncbi-tools++/objects/blastxml/.cvsignore
	include/ncbi-tools++/objects/blastxml/BlastOutput.hpp
	include/ncbi-tools++/objects/blastxml/BlastOutput_.hpp
	include/ncbi-tools++/objects/blastxml/Hit.hpp
	@@ -756,7 +770,6 @@
	include/ncbi-tools++/objects/blastxml/Statistics.hpp
	include/ncbi-tools++/objects/blastxml/Statistics_.hpp
	include/ncbi-tools++/objects/blastxml/blastxml__.hpp
	-include/ncbi-tools++/objects/blastxml2/.cvsignore
	include/ncbi-tools++/objects/blastxml2/BlastOutput2.hpp
	include/ncbi-tools++/objects/blastxml2/BlastOutput2_.hpp
	include/ncbi-tools++/objects/blastxml2/BlastXML2.hpp
	@@ -787,7 +800,6 @@
	include/ncbi-tools++/objects/blastxml2/Target.hpp
	include/ncbi-tools++/objects/blastxml2/Target_.hpp
	include/ncbi-tools++/objects/blastxml2/blastxml2__.hpp
	-include/ncbi-tools++/objects/cdd/.cvsignore
	include/ncbi-tools++/objects/cdd/Algorithm_type.hpp
	include/ncbi-tools++/objects/cdd/Algorithm_type_.hpp
	include/ncbi-tools++/objects/cdd/Align_annot.hpp
	@@ -856,7 +868,6 @@
	include/ncbi-tools++/objects/cdd/Update_comment.hpp
	include/ncbi-tools++/objects/cdd/Update_comment_.hpp
	include/ncbi-tools++/objects/cdd/cdd__.hpp
	-include/ncbi-tools++/objects/cn3d/.cvsignore
	include/ncbi-tools++/objects/cn3d/Cn3d_GL_matrix.hpp
	include/ncbi-tools++/objects/cn3d/Cn3d_GL_matrix_.hpp
	include/ncbi-tools++/objects/cn3d/Cn3d_backbone_label_style.hpp
	@@ -899,14 +910,12 @@
	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
	-include/ncbi-tools++/objects/docsum/.cvsignore
	include/ncbi-tools++/objects/docsum/Assay.hpp
	include/ncbi-tools++/objects/docsum/Assay_.hpp
	include/ncbi-tools++/objects/docsum/Assembly.hpp
	@@ -933,8 +942,6 @@
	include/ncbi-tools++/objects/docsum/Ss.hpp
	include/ncbi-tools++/objects/docsum/Ss_.hpp
	include/ncbi-tools++/objects/docsum/docsum__.hpp
	-include/ncbi-tools++/objects/entrez2/.cvsignore
	-include/ncbi-tools++/objects/entrez2/.cvsignore.extra
	include/ncbi-tools++/objects/entrez2/E2Reply.hpp
	include/ncbi-tools++/objects/entrez2/E2Reply_.hpp
	include/ncbi-tools++/objects/entrez2/E2Request.hpp
	@@ -1013,7 +1020,6 @@
	include/ncbi-tools++/objects/entrez2/entrez2__.hpp
	include/ncbi-tools++/objects/entrez2/entrez2_client.hpp
	include/ncbi-tools++/objects/entrez2/entrez2_client_.hpp
	-include/ncbi-tools++/objects/entrezgene/.cvsignore
	include/ncbi-tools++/objects/entrezgene/Entrezgene.hpp
	include/ncbi-tools++/objects/entrezgene/Entrezgene_.hpp
	include/ncbi-tools++/objects/entrezgene/Entrezgene_Set.hpp
	@@ -1032,7 +1038,6 @@
	include/ncbi-tools++/objects/entrezgene/Xtra_Terms.hpp
	include/ncbi-tools++/objects/entrezgene/Xtra_Terms_.hpp
	include/ncbi-tools++/objects/entrezgene/entrezgene__.hpp
	-include/ncbi-tools++/objects/featdef/.cvsignore
	include/ncbi-tools++/objects/featdef/FeatDef.hpp
	include/ncbi-tools++/objects/featdef/FeatDefGroupSet.hpp
	include/ncbi-tools++/objects/featdef/FeatDefGroupSet_.hpp
	@@ -1047,7 +1052,6 @@
	include/ncbi-tools++/objects/featdef/FeatMolType_.hpp
	include/ncbi-tools++/objects/featdef/NCBI_FeatDef_module.hpp
	include/ncbi-tools++/objects/featdef/featdef__.hpp
	-include/ncbi-tools++/objects/gbproj/.cvsignore
	include/ncbi-tools++/objects/gbproj/AbstractProjectItem.hpp
	include/ncbi-tools++/objects/gbproj/AbstractProjectItem_.hpp
	include/ncbi-tools++/objects/gbproj/DummyObsoleteType.hpp
	@@ -1078,7 +1082,6 @@
	include/ncbi-tools++/objects/gbproj/gbproj__.hpp
	include/ncbi-tools++/objects/gbproj/gbproj_export.h
	include/ncbi-tools++/objects/gbproj/igbproject.hpp
	-include/ncbi-tools++/objects/gbseq/.cvsignore
	include/ncbi-tools++/objects/gbseq/GBAltSeqData.hpp
	include/ncbi-tools++/objects/gbseq/GBAltSeqData_.hpp
	include/ncbi-tools++/objects/gbseq/GBAltSeqItem.hpp
	@@ -1117,7 +1120,6 @@
	include/ncbi-tools++/objects/gbseq/GBXref_.hpp
	include/ncbi-tools++/objects/gbseq/NCBI_GBSeq_module.hpp
	include/ncbi-tools++/objects/gbseq/gbseq__.hpp
	-include/ncbi-tools++/objects/general/.cvsignore
	include/ncbi-tools++/objects/general/Date.hpp
	include/ncbi-tools++/objects/general/Date_.hpp
	include/ncbi-tools++/objects/general/Date_std.hpp
	@@ -1141,7 +1143,6 @@
	include/ncbi-tools++/objects/general/general_exception.hpp
	include/ncbi-tools++/objects/general/general_macros.hpp
	include/ncbi-tools++/objects/general/uoconv.hpp
	-include/ncbi-tools++/objects/genesbyloc/.cvsignore
	include/ncbi-tools++/objects/genesbyloc/GBL_Data.hpp
	include/ncbi-tools++/objects/genesbyloc/GBL_Data_.hpp
	include/ncbi-tools++/objects/genesbyloc/GBL_Gene.hpp
	@@ -1150,8 +1151,6 @@
	include/ncbi-tools++/objects/genesbyloc/GBL_Reply_.hpp
	include/ncbi-tools++/objects/genesbyloc/NCBI_GenesByLoc_module.hpp
	include/ncbi-tools++/objects/genesbyloc/genesbyloc__.hpp
	-include/ncbi-tools++/objects/genomecoll/.cvsignore
	-include/ncbi-tools++/objects/genomecoll/.cvsignore.extra
	include/ncbi-tools++/objects/genomecoll/GCClientRequest.hpp
	include/ncbi-tools++/objects/genomecoll/GCClientRequest_.hpp
	include/ncbi-tools++/objects/genomecoll/GCClientResponse.hpp
	@@ -1229,7 +1228,6 @@
	include/ncbi-tools++/objects/genomecoll/genome_collection__.hpp
	include/ncbi-tools++/objects/genomecoll/genomic_collections_cli.hpp
	include/ncbi-tools++/objects/genomecoll/genomic_collections_cli_.hpp
	-include/ncbi-tools++/objects/homologene/.cvsignore
	include/ncbi-tools++/objects/homologene/HG_Alignment.hpp
	include/ncbi-tools++/objects/homologene/HG_AlignmentSet.hpp
	include/ncbi-tools++/objects/homologene/HG_AlignmentSet_.hpp
	@@ -1258,8 +1256,6 @@
	include/ncbi-tools++/objects/homologene/HG_Stats_.hpp
	include/ncbi-tools++/objects/homologene/HomoloGene_module.hpp
	include/ncbi-tools++/objects/homologene/homologene__.hpp
	-include/ncbi-tools++/objects/id1/.cvsignore
	-include/ncbi-tools++/objects/id1/.cvsignore.extra
	include/ncbi-tools++/objects/id1/Entry_complexities.hpp
	include/ncbi-tools++/objects/id1/Entry_complexities_.hpp
	include/ncbi-tools++/objects/id1/ID1SeqEntry_info.hpp
	@@ -1280,7 +1276,6 @@
	include/ncbi-tools++/objects/id1/id1__.hpp
	include/ncbi-tools++/objects/id1/id1_client.hpp
	include/ncbi-tools++/objects/id1/id1_client_.hpp
	-include/ncbi-tools++/objects/id2/.cvsignore
	include/ncbi-tools++/objects/id2/ID2S_Reply_Get_Chunk.hpp
	include/ncbi-tools++/objects/id2/ID2S_Reply_Get_Chunk_.hpp
	include/ncbi-tools++/objects/id2/ID2S_Reply_Get_Split_Info.hpp
	@@ -1341,7 +1336,6 @@
	include/ncbi-tools++/objects/id2/id2_client_.hpp
	include/ncbi-tools++/objects/id2/id2processor.hpp
	include/ncbi-tools++/objects/id2/id2processor_interface.hpp
	-include/ncbi-tools++/objects/insdseq/.cvsignore
	include/ncbi-tools++/objects/insdseq/INSDAltSeqData.hpp
	include/ncbi-tools++/objects/insdseq/INSDAltSeqData_.hpp
	include/ncbi-tools++/objects/insdseq/INSDAltSeqItem.hpp
	@@ -1380,7 +1374,6 @@
	include/ncbi-tools++/objects/insdseq/INSDXref_.hpp
	include/ncbi-tools++/objects/insdseq/INSD_INSDSeq_module.hpp
	include/ncbi-tools++/objects/insdseq/insdseq__.hpp
	-include/ncbi-tools++/objects/macro/.cvsignore
	include/ncbi-tools++/objects/macro/AECRParse_action.hpp
	include/ncbi-tools++/objects/macro/AECRParse_action_.hpp
	include/ncbi-tools++/objects/macro/AECR_action.hpp
	@@ -1741,14 +1734,12 @@
	include/ncbi-tools++/objects/macro/Xref_type.hpp
	include/ncbi-tools++/objects/macro/Xref_type_.hpp
	include/ncbi-tools++/objects/macro/macro__.hpp
	-include/ncbi-tools++/objects/medlars/.cvsignore
	include/ncbi-tools++/objects/medlars/Medlars_entry.hpp
	include/ncbi-tools++/objects/medlars/Medlars_entry_.hpp
	include/ncbi-tools++/objects/medlars/Medlars_record.hpp
	include/ncbi-tools++/objects/medlars/Medlars_record_.hpp
	include/ncbi-tools++/objects/medlars/NCBI_Medlars_module.hpp
	include/ncbi-tools++/objects/medlars/medlars__.hpp
	-include/ncbi-tools++/objects/medline/.cvsignore
	include/ncbi-tools++/objects/medline/DocRef.hpp
	include/ncbi-tools++/objects/medline/DocRef_.hpp
	include/ncbi-tools++/objects/medline/Medline_entry.hpp
	@@ -1765,7 +1756,6 @@
	include/ncbi-tools++/objects/medline/Medline_si_.hpp
	include/ncbi-tools++/objects/medline/NCBI_Medline_module.hpp
	include/ncbi-tools++/objects/medline/medline__.hpp
	-include/ncbi-tools++/objects/mim/.cvsignore
	include/ncbi-tools++/objects/mim/Mim_allelic_variant.hpp
	include/ncbi-tools++/objects/mim/Mim_allelic_variant_.hpp
	include/ncbi-tools++/objects/mim/Mim_author.hpp
	@@ -1797,8 +1787,6 @@
	include/ncbi-tools++/objects/misc/error_codes.hpp
	include/ncbi-tools++/objects/misc/sequence_macros.hpp
	include/ncbi-tools++/objects/misc/sequence_util_macros.hpp
	-include/ncbi-tools++/objects/mla/.cvsignore
	-include/ncbi-tools++/objects/mla/.cvsignore.extra
	include/ncbi-tools++/objects/mla/Error_val.hpp
	include/ncbi-tools++/objects/mla/Error_val_.hpp
	include/ncbi-tools++/objects/mla/Mla_back.hpp
	@@ -1815,7 +1803,6 @@
	include/ncbi-tools++/objects/mla/mla__.hpp
	include/ncbi-tools++/objects/mla/mla_client.hpp
	include/ncbi-tools++/objects/mla/mla_client_.hpp
	-include/ncbi-tools++/objects/mmdb1/.cvsignore
	include/ncbi-tools++/objects/mmdb1/Atom.hpp
	include/ncbi-tools++/objects/mmdb1/Atom_.hpp
	include/ncbi-tools++/objects/mmdb1/Atom_id.hpp
	@@ -1877,7 +1864,6 @@
	include/ncbi-tools++/objects/mmdb1/Residue_id.hpp
	include/ncbi-tools++/objects/mmdb1/Residue_id_.hpp
	include/ncbi-tools++/objects/mmdb1/mmdb1__.hpp
	-include/ncbi-tools++/objects/mmdb2/.cvsignore
	include/ncbi-tools++/objects/mmdb2/Alternate_conformation_id.hpp
	include/ncbi-tools++/objects/mmdb2/Alternate_conformation_id_.hpp
	include/ncbi-tools++/objects/mmdb2/Alternate_conformation_ids.hpp
	@@ -1924,7 +1910,6 @@
	include/ncbi-tools++/objects/mmdb2/Triangles.hpp
	include/ncbi-tools++/objects/mmdb2/Triangles_.hpp
	include/ncbi-tools++/objects/mmdb2/mmdb2__.hpp
	-include/ncbi-tools++/objects/mmdb3/.cvsignore
	include/ncbi-tools++/objects/mmdb3/Align_stats.hpp
	include/ncbi-tools++/objects/mmdb3/Align_stats_.hpp
	include/ncbi-tools++/objects/mmdb3/Atom_pntrs.hpp
	@@ -2001,7 +1986,6 @@
	include/ncbi-tools++/objects/mmdb3/Transform.hpp
	include/ncbi-tools++/objects/mmdb3/Transform_.hpp
	include/ncbi-tools++/objects/mmdb3/mmdb3__.hpp
	-include/ncbi-tools++/objects/ncbimime/.cvsignore
	include/ncbi-tools++/objects/ncbimime/Biostruc_align.hpp
	include/ncbi-tools++/objects/ncbimime/Biostruc_align_.hpp
	include/ncbi-tools++/objects/ncbimime/Biostruc_align_seq.hpp
	@@ -2022,7 +2006,6 @@
	include/ncbi-tools++/objects/ncbimime/Ncbi_mime_asn1.hpp
	include/ncbi-tools++/objects/ncbimime/Ncbi_mime_asn1_.hpp
	include/ncbi-tools++/objects/ncbimime/ncbimime__.hpp
	-include/ncbi-tools++/objects/objprt/.cvsignore
	include/ncbi-tools++/objects/objprt/NCBI_ObjPrt_module.hpp
	include/ncbi-tools++/objects/objprt/PrintForm.hpp
	include/ncbi-tools++/objects/objprt/PrintFormBlock.hpp
	@@ -2045,7 +2028,6 @@
	include/ncbi-tools++/objects/objprt/UserFormat.hpp
	include/ncbi-tools++/objects/objprt/UserFormat_.hpp
	include/ncbi-tools++/objects/objprt/objprt__.hpp
	-include/ncbi-tools++/objects/omssa/.cvsignore
	include/ncbi-tools++/objects/omssa/MSBioseq.hpp
	include/ncbi-tools++/objects/omssa/MSBioseqSet.hpp
	include/ncbi-tools++/objects/omssa/MSBioseqSet_.hpp
	@@ -2132,7 +2114,6 @@
	include/ncbi-tools++/objects/omssa/NameValue_.hpp
	include/ncbi-tools++/objects/omssa/OMSSA_module.hpp
	include/ncbi-tools++/objects/omssa/omssa__.hpp
	-include/ncbi-tools++/objects/pcassay/.cvsignore
	include/ncbi-tools++/objects/pcassay/NCBI_PCAssay_module.hpp
	include/ncbi-tools++/objects/pcassay/PC_AnnotatedXRef.hpp
	include/ncbi-tools++/objects/pcassay/PC_AnnotatedXRef_.hpp
	@@ -2167,7 +2148,6 @@
	include/ncbi-tools++/objects/pcassay/PC_ResultType.hpp
	include/ncbi-tools++/objects/pcassay/PC_ResultType_.hpp
	include/ncbi-tools++/objects/pcassay/pcassay__.hpp
	-include/ncbi-tools++/objects/pcsubstance/.cvsignore
	include/ncbi-tools++/objects/pcsubstance/NCBI_PCSubstance_module.hpp
	include/ncbi-tools++/objects/pcsubstance/PC_AtomInt.hpp
	include/ncbi-tools++/objects/pcsubstance/PC_AtomInt_.hpp
	@@ -2244,7 +2224,6 @@
	include/ncbi-tools++/objects/pcsubstance/PC_XRefData.hpp
	include/ncbi-tools++/objects/pcsubstance/PC_XRefData_.hpp
	include/ncbi-tools++/objects/pcsubstance/pcsubstance__.hpp
	-include/ncbi-tools++/objects/proj/.cvsignore
	include/ncbi-tools++/objects/proj/NCBI_Project_module.hpp
	include/ncbi-tools++/objects/proj/Projdesc.hpp
	include/ncbi-tools++/objects/proj/Projdesc_.hpp
	@@ -2257,7 +2236,6 @@
	include/ncbi-tools++/objects/proj/Project_item.hpp
	include/ncbi-tools++/objects/proj/Project_item_.hpp
	include/ncbi-tools++/objects/proj/proj__.hpp
	-include/ncbi-tools++/objects/pub/.cvsignore
	include/ncbi-tools++/objects/pub/NCBI_Pub_module.hpp
	include/ncbi-tools++/objects/pub/Pub.hpp
	include/ncbi-tools++/objects/pub/Pub_.hpp
	@@ -2267,15 +2245,12 @@
	include/ncbi-tools++/objects/pub/Pub_set_.hpp
	include/ncbi-tools++/objects/pub/pub__.hpp
	include/ncbi-tools++/objects/pub/pub_macros.hpp
	-include/ncbi-tools++/objects/pubmed/.cvsignore
	include/ncbi-tools++/objects/pubmed/NCBI_PubMed_module.hpp
	include/ncbi-tools++/objects/pubmed/Pubmed_entry.hpp
	include/ncbi-tools++/objects/pubmed/Pubmed_entry_.hpp
	include/ncbi-tools++/objects/pubmed/Pubmed_url.hpp
	include/ncbi-tools++/objects/pubmed/Pubmed_url_.hpp
	include/ncbi-tools++/objects/pubmed/pubmed__.hpp
	-include/ncbi-tools++/objects/remap/.cvsignore
	-include/ncbi-tools++/objects/remap/.cvsignore.extra
	include/ncbi-tools++/objects/remap/NCBI_Remap_module.hpp
	include/ncbi-tools++/objects/remap/RMReply.hpp
	include/ncbi-tools++/objects/remap/RMReply_.hpp
	@@ -2296,7 +2271,6 @@
	include/ncbi-tools++/objects/remap/remap__.hpp
	include/ncbi-tools++/objects/remap/remap_client.hpp
	include/ncbi-tools++/objects/remap/remap_client_.hpp
	-include/ncbi-tools++/objects/scoremat/.cvsignore
	include/ncbi-tools++/objects/scoremat/BlockProperty.hpp
	include/ncbi-tools++/objects/scoremat/BlockProperty_.hpp
	include/ncbi-tools++/objects/scoremat/CoreBlock.hpp
	@@ -2323,7 +2297,6 @@
	include/ncbi-tools++/objects/scoremat/Site_annot_set.hpp
	include/ncbi-tools++/objects/scoremat/Site_annot_set_.hpp
	include/ncbi-tools++/objects/scoremat/scoremat__.hpp
	-include/ncbi-tools++/objects/seq/.cvsignore
	include/ncbi-tools++/objects/seq/Align_def.hpp
	include/ncbi-tools++/objects/seq/Align_def_.hpp
	include/ncbi-tools++/objects/seq/Annot_descr.hpp
	@@ -2422,9 +2395,9 @@
	include/ncbi-tools++/objects/seq/seq_macros.hpp
	include/ncbi-tools++/objects/seq/seqlocinfo.hpp
	include/ncbi-tools++/objects/seq/seqport_util.hpp
	+include/ncbi-tools++/objects/seq/so_map.hpp
	include/ncbi-tools++/objects/seq/sofa_map.hpp
	include/ncbi-tools++/objects/seq/sofa_type.hpp
	-include/ncbi-tools++/objects/seqalign/.cvsignore
	include/ncbi-tools++/objects/seqalign/Dense_diag.hpp
	include/ncbi-tools++/objects/seqalign/Dense_diag_.hpp
	include/ncbi-tools++/objects/seqalign/Dense_seg.hpp
	@@ -2465,7 +2438,6 @@
	include/ncbi-tools++/objects/seqalign/seqalign__.hpp
	include/ncbi-tools++/objects/seqalign/seqalign_exception.hpp
	include/ncbi-tools++/objects/seqalign/seqalign_macros.hpp
	-include/ncbi-tools++/objects/seqblock/.cvsignore
	include/ncbi-tools++/objects/seqblock/EMBL_General_module.hpp
	include/ncbi-tools++/objects/seqblock/EMBL_block.hpp
	include/ncbi-tools++/objects/seqblock/EMBL_block_.hpp
	@@ -2494,7 +2466,6 @@
	include/ncbi-tools++/objects/seqblock/SP_block_.hpp
	include/ncbi-tools++/objects/seqblock/seqblock__.hpp
	include/ncbi-tools++/objects/seqblock/seqblock_macros.hpp
	-include/ncbi-tools++/objects/seqcode/.cvsignore
	include/ncbi-tools++/objects/seqcode/NCBI_SeqCode_module.hpp
	include/ncbi-tools++/objects/seqcode/Seq_code_set.hpp
	include/ncbi-tools++/objects/seqcode/Seq_code_set_.hpp
	@@ -2505,7 +2476,6 @@
	include/ncbi-tools++/objects/seqcode/Seq_map_table.hpp
	include/ncbi-tools++/objects/seqcode/Seq_map_table_.hpp
	include/ncbi-tools++/objects/seqcode/seqcode__.hpp
	-include/ncbi-tools++/objects/seqedit/.cvsignore
	include/ncbi-tools++/objects/seqedit/NCBI_SeqEdit_module.hpp
	include/ncbi-tools++/objects/seqedit/SeqEdit_Cmd.hpp
	include/ncbi-tools++/objects/seqedit/SeqEdit_Cmd_.hpp
	@@ -2554,7 +2524,6 @@
	include/ncbi-tools++/objects/seqedit/SeqEdit_Id.hpp
	include/ncbi-tools++/objects/seqedit/SeqEdit_Id_.hpp
	include/ncbi-tools++/objects/seqedit/seqedit__.hpp
	-include/ncbi-tools++/objects/seqfeat/.cvsignore
	include/ncbi-tools++/objects/seqfeat/BinomialOrgName.hpp
	include/ncbi-tools++/objects/seqfeat/BinomialOrgName_.hpp
	include/ncbi-tools++/objects/seqfeat/BioSource.hpp
	@@ -2675,7 +2644,6 @@
	include/ncbi-tools++/objects/seqfeat/Variation_ref_.hpp
	include/ncbi-tools++/objects/seqfeat/seqfeat__.hpp
	include/ncbi-tools++/objects/seqfeat/seqfeat_macros.hpp
	-include/ncbi-tools++/objects/seqloc/.cvsignore
	include/ncbi-tools++/objects/seqloc/Giimport_id.hpp
	include/ncbi-tools++/objects/seqloc/Giimport_id_.hpp
	include/ncbi-tools++/objects/seqloc/NCBI_Seqloc_module.hpp
	@@ -2711,7 +2679,6 @@
	include/ncbi-tools++/objects/seqloc/Textseq_id_.hpp
	include/ncbi-tools++/objects/seqloc/seqloc__.hpp
	include/ncbi-tools++/objects/seqloc/seqloc_macros.hpp
	-include/ncbi-tools++/objects/seqres/.cvsignore
	include/ncbi-tools++/objects/seqres/Byte_graph.hpp
	include/ncbi-tools++/objects/seqres/Byte_graph_.hpp
	include/ncbi-tools++/objects/seqres/Int_graph.hpp
	@@ -2722,7 +2689,6 @@
	include/ncbi-tools++/objects/seqres/Seq_graph.hpp
	include/ncbi-tools++/objects/seqres/Seq_graph_.hpp
	include/ncbi-tools++/objects/seqres/seqres__.hpp
	-include/ncbi-tools++/objects/seqset/.cvsignore
	include/ncbi-tools++/objects/seqset/Bioseq_set.hpp
	include/ncbi-tools++/objects/seqset/Bioseq_set_.hpp
	include/ncbi-tools++/objects/seqset/NCBI_Seqset_module.hpp
	@@ -2732,7 +2698,6 @@
	include/ncbi-tools++/objects/seqset/seqset__.hpp
	include/ncbi-tools++/objects/seqset/seqset_exception.hpp
	include/ncbi-tools++/objects/seqset/seqset_macros.hpp
	-include/ncbi-tools++/objects/seqsplit/.cvsignore
	include/ncbi-tools++/objects/seqsplit/ID2S_Bioseq_Ids.hpp
	include/ncbi-tools++/objects/seqsplit/ID2S_Bioseq_Ids_.hpp
	include/ncbi-tools++/objects/seqsplit/ID2S_Bioseq_Info.hpp
	@@ -2789,7 +2754,6 @@
	include/ncbi-tools++/objects/seqsplit/ID2S_Split_Info_.hpp
	include/ncbi-tools++/objects/seqsplit/NCBI_Seq_split_module.hpp
	include/ncbi-tools++/objects/seqsplit/seqsplit__.hpp
	-include/ncbi-tools++/objects/seqtable/.cvsignore
	include/ncbi-tools++/objects/seqtable/BVector_data.hpp
	include/ncbi-tools++/objects/seqtable/BVector_data_.hpp
	include/ncbi-tools++/objects/seqtable/CommonBytes_table.hpp
	@@ -2816,7 +2780,6 @@
	include/ncbi-tools++/objects/seqtable/impl/delta_cache.hpp
	include/ncbi-tools++/objects/seqtable/seq_table_exception.hpp
	include/ncbi-tools++/objects/seqtable/seqtable__.hpp
	-include/ncbi-tools++/objects/seqtest/.cvsignore
	include/ncbi-tools++/objects/seqtest/NCBI_SeqTest_module.hpp
	include/ncbi-tools++/objects/seqtest/SeqTestResults.hpp
	include/ncbi-tools++/objects/seqtest/SeqTestResults_.hpp
	@@ -2825,7 +2788,6 @@
	include/ncbi-tools++/objects/seqtest/Seq_test_result_set.hpp
	include/ncbi-tools++/objects/seqtest/Seq_test_result_set_.hpp
	include/ncbi-tools++/objects/seqtest/seqtest__.hpp
	-include/ncbi-tools++/objects/submit/.cvsignore
	include/ncbi-tools++/objects/submit/Contact_info.hpp
	include/ncbi-tools++/objects/submit/Contact_info_.hpp
	include/ncbi-tools++/objects/submit/NCBI_Submit_module.hpp
	@@ -2835,7 +2797,6 @@
	include/ncbi-tools++/objects/submit/Submit_block_.hpp
	include/ncbi-tools++/objects/submit/submit__.hpp
	include/ncbi-tools++/objects/submit/submit_macros.hpp
	-include/ncbi-tools++/objects/taxon1/.cvsignore
	include/ncbi-tools++/objects/taxon1/NCBI_Taxon1_module.hpp
	include/ncbi-tools++/objects/taxon1/Taxon1_data.hpp
	include/ncbi-tools++/objects/taxon1/Taxon1_data_.hpp
	@@ -2853,7 +2814,6 @@
	include/ncbi-tools++/objects/taxon1/Taxon2_data_.hpp
	include/ncbi-tools++/objects/taxon1/taxon1.hpp
	include/ncbi-tools++/objects/taxon1/taxon1__.hpp
	-include/ncbi-tools++/objects/taxon3/.cvsignore
	include/ncbi-tools++/objects/taxon3/NCBI_Taxon3_module.hpp
	include/ncbi-tools++/objects/taxon3/SequenceOfInt.hpp
	include/ncbi-tools++/objects/taxon3/SequenceOfInt_.hpp
	@@ -2877,14 +2837,12 @@
	include/ncbi-tools++/objects/taxon3/itaxon3.hpp
	include/ncbi-tools++/objects/taxon3/taxon3.hpp
	include/ncbi-tools++/objects/taxon3/taxon3__.hpp
	-include/ncbi-tools++/objects/tinyseq/.cvsignore
	include/ncbi-tools++/objects/tinyseq/NCBI_TSeq_module.hpp
	include/ncbi-tools++/objects/tinyseq/TSeq.hpp
	include/ncbi-tools++/objects/tinyseq/TSeqSet.hpp
	include/ncbi-tools++/objects/tinyseq/TSeqSet_.hpp
	include/ncbi-tools++/objects/tinyseq/TSeq_.hpp
	include/ncbi-tools++/objects/tinyseq/tinyseq__.hpp
	-include/ncbi-tools++/objects/trackmgr/.cvsignore
	include/ncbi-tools++/objects/trackmgr/NCBI_TrackManager_module.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_ACL_AccessLevel.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_ACL_AccessLevel_.hpp
	@@ -2974,6 +2932,10 @@
	include/ncbi-tools++/objects/trackmgr/TMgr_RetrieveTracksetReply_.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_RetrieveTracksetReque.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_RetrieveTracksetReque_.hpp
	+include/ncbi-tools++/objects/trackmgr/TMgr_SeqTrackIdReply.hpp
	+include/ncbi-tools++/objects/trackmgr/TMgr_SeqTrackIdReply_.hpp
	+include/ncbi-tools++/objects/trackmgr/TMgr_SeqTrackIdRequest.hpp
	+include/ncbi-tools++/objects/trackmgr/TMgr_SeqTrackIdRequest_.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_Status.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_Status_.hpp
	include/ncbi-tools++/objects/trackmgr/TMgr_SupportedAssembliesRe.hpp
	@@ -3012,6 +2974,7 @@
	include/ncbi-tools++/objects/trackmgr/displaytrack_client.hpp
	include/ncbi-tools++/objects/trackmgr/gridrpcclient.hpp
	include/ncbi-tools++/objects/trackmgr/item_resolver_client.hpp
	+include/ncbi-tools++/objects/trackmgr/primary_snp.hpp
	include/ncbi-tools++/objects/trackmgr/removeusertrack_client.hpp
	include/ncbi-tools++/objects/trackmgr/supported_assemblies_client.hpp
	include/ncbi-tools++/objects/trackmgr/switch_context_client.hpp
	@@ -3021,14 +2984,12 @@
	include/ncbi-tools++/objects/trackmgr/trackmgr_client_.hpp
	include/ncbi-tools++/objects/trackmgr/trackmgr_export.h
	include/ncbi-tools++/objects/trackmgr/trackset_client.hpp
	-include/ncbi-tools++/objects/valerr/.cvsignore
	include/ncbi-tools++/objects/valerr/NCBI_ValErrors_module.hpp
	include/ncbi-tools++/objects/valerr/ValidErrItem.hpp
	include/ncbi-tools++/objects/valerr/ValidErrItem_.hpp
	include/ncbi-tools++/objects/valerr/ValidError.hpp
	include/ncbi-tools++/objects/valerr/ValidError_.hpp
	include/ncbi-tools++/objects/valerr/valerr__.hpp
	-include/ncbi-tools++/objects/valid/.cvsignore
	include/ncbi-tools++/objects/valid/Comment_rule.hpp
	include/ncbi-tools++/objects/valid/Comment_rule_.hpp
	include/ncbi-tools++/objects/valid/Comment_set.hpp
	@@ -3047,7 +3008,6 @@
	include/ncbi-tools++/objects/valid/Severity_level.hpp
	include/ncbi-tools++/objects/valid/Severity_level_.hpp
	include/ncbi-tools++/objects/valid/valid__.hpp
	-include/ncbi-tools++/objects/variation/.cvsignore
	include/ncbi-tools++/objects/variation/NCBI_VariationPackage_module.hpp
	include/ncbi-tools++/objects/variation/VariantPlacement.hpp
	include/ncbi-tools++/objects/variation/VariantPlacement_.hpp
	@@ -3058,7 +3018,6 @@
	include/ncbi-tools++/objects/variation/VariationMethod_.hpp
	include/ncbi-tools++/objects/variation/Variation_.hpp
	include/ncbi-tools++/objects/variation/variation__.hpp
	-include/ncbi-tools++/objects/varrep/.cvsignore
	include/ncbi-tools++/objects/varrep/AaInterval.hpp
	include/ncbi-tools++/objects/varrep/AaInterval_.hpp
	include/ncbi-tools++/objects/varrep/AaLocation.hpp
	@@ -3237,8 +3196,18 @@
	include/ncbi-tools++/objmgr/table_field.hpp
	include/ncbi-tools++/objmgr/tse_handle.hpp
	include/ncbi-tools++/objmgr/unsupp_editsaver.hpp
	+include/ncbi-tools++/objmgr/util/autodef.hpp
	+include/ncbi-tools++/objmgr/util/autodef_available_modifier.hpp
	+include/ncbi-tools++/objmgr/util/autodef_feature_clause.hpp
	+include/ncbi-tools++/objmgr/util/autodef_feature_clause_base.hpp
	+include/ncbi-tools++/objmgr/util/autodef_mod_combo.hpp
	+include/ncbi-tools++/objmgr/util/autodef_options.hpp
	+include/ncbi-tools++/objmgr/util/autodef_source_desc.hpp
	+include/ncbi-tools++/objmgr/util/autodef_source_group.hpp
	include/ncbi-tools++/objmgr/util/create_defline.hpp
	include/ncbi-tools++/objmgr/util/feature.hpp
	+include/ncbi-tools++/objmgr/util/feature_edit.hpp
	+include/ncbi-tools++/objmgr/util/indexer.hpp
	include/ncbi-tools++/objmgr/util/obj_sniff.hpp
	include/ncbi-tools++/objmgr/util/objutil.hpp
	include/ncbi-tools++/objmgr/util/seq_align_util.hpp
	@@ -3290,6 +3259,7 @@
	include/ncbi-tools++/objtools/blast/blastdb_format/blastdb_formatter.hpp
	include/ncbi-tools++/objtools/blast/blastdb_format/blastdb_seqid.hpp
	include/ncbi-tools++/objtools/blast/blastdb_format/invalid_data_exception.hpp
	+include/ncbi-tools++/objtools/blast/blastdb_format/seq_formatter.hpp
	include/ncbi-tools++/objtools/blast/blastdb_format/seq_writer.hpp
	include/ncbi-tools++/objtools/blast/gene_info_reader/file_utils.hpp
	include/ncbi-tools++/objtools/blast/gene_info_reader/gene_info.hpp
	@@ -3372,19 +3342,16 @@
	include/ncbi-tools++/objtools/data_loaders/loaders.hpp
	include/ncbi-tools++/objtools/edit/apply_object.hpp
	include/ncbi-tools++/objtools/edit/autodef.hpp
	-include/ncbi-tools++/objtools/edit/autodef_available_modifier.hpp
	-include/ncbi-tools++/objtools/edit/autodef_feature_clause.hpp
	-include/ncbi-tools++/objtools/edit/autodef_feature_clause_base.hpp
	-include/ncbi-tools++/objtools/edit/autodef_mod_combo.hpp
	include/ncbi-tools++/objtools/edit/autodef_options.hpp
	include/ncbi-tools++/objtools/edit/autodef_source_desc.hpp
	-include/ncbi-tools++/objtools/edit/autodef_source_group.hpp
	+include/ncbi-tools++/objtools/edit/autodef_with_tax.hpp
	include/ncbi-tools++/objtools/edit/capitalization_string.hpp
	include/ncbi-tools++/objtools/edit/cds_fix.hpp
	include/ncbi-tools++/objtools/edit/dblink_field.hpp
	include/ncbi-tools++/objtools/edit/edit_exception.hpp
	include/ncbi-tools++/objtools/edit/feattable_edit.hpp
	include/ncbi-tools++/objtools/edit/field_handler.hpp
	+include/ncbi-tools++/objtools/edit/gap_trim.hpp
	include/ncbi-tools++/objtools/edit/gaps_edit.hpp
	include/ncbi-tools++/objtools/edit/gb_block_field.hpp
	include/ncbi-tools++/objtools/edit/gene_utils.hpp
	@@ -3420,9 +3387,6 @@
	include/ncbi-tools++/objtools/format/gbseq_formatter.hpp
	include/ncbi-tools++/objtools/format/genbank_formatter.hpp
	include/ncbi-tools++/objtools/format/genbank_gather.hpp
	-include/ncbi-tools++/objtools/format/gff3_formatter.hpp
	-include/ncbi-tools++/objtools/format/gff_formatter.hpp
	-include/ncbi-tools++/objtools/format/gff_gather.hpp
	include/ncbi-tools++/objtools/format/item_formatter.hpp
	include/ncbi-tools++/objtools/format/item_ostream.hpp
	include/ncbi-tools++/objtools/format/items/accession_item.hpp
	@@ -3470,6 +3434,7 @@
	include/ncbi-tools++/objtools/readers/error_container.hpp
	include/ncbi-tools++/objtools/readers/fasta.hpp
	include/ncbi-tools++/objtools/readers/fasta_exception.hpp
	+include/ncbi-tools++/objtools/readers/fasta_reader_utils.hpp
	include/ncbi-tools++/objtools/readers/featuredump.hpp
	include/ncbi-tools++/objtools/readers/format_guess_ex.hpp
	include/ncbi-tools++/objtools/readers/getfeature.hpp
	@@ -3495,6 +3460,7 @@
	include/ncbi-tools++/objtools/readers/rm_reader.hpp
	include/ncbi-tools++/objtools/readers/source_mod_parser.hpp
	include/ncbi-tools++/objtools/readers/source_mod_parser_wrapper.hpp
	+include/ncbi-tools++/objtools/readers/struct_cmt_reader.hpp
	include/ncbi-tools++/objtools/readers/table_filter.hpp
	include/ncbi-tools++/objtools/readers/track_data.hpp
	include/ncbi-tools++/objtools/readers/ucscregion_reader.hpp
	@@ -3624,6 +3590,9 @@
	include/ncbi-tools++/util/bitset/bmgamma.h
	include/ncbi-tools++/util/bitset/bmrandom.h
	include/ncbi-tools++/util/bitset/bmserial.h
	+include/ncbi-tools++/util/bitset/bmsparsevec.h
	+include/ncbi-tools++/util/bitset/bmsparsevec_algo.h
	+include/ncbi-tools++/util/bitset/bmsparsevec_serial.h
	include/ncbi-tools++/util/bitset/bmsse2.h
	include/ncbi-tools++/util/bitset/bmsse4.h
	include/ncbi-tools++/util/bitset/bmsse_util.h
	@@ -3709,6 +3678,14 @@
	include/ncbi-tools++/util/resize_iter.hpp
	include/ncbi-tools++/util/resource_pool.hpp
	include/ncbi-tools++/util/retry_ctx.hpp
	+include/ncbi-tools++/util/row_reader.hpp
	+include/ncbi-tools++/util/row_reader.inl
	+include/ncbi-tools++/util/row_reader_base.hpp
	+include/ncbi-tools++/util/row_reader_char_delimited.hpp
	+include/ncbi-tools++/util/row_reader_excel_csv.hpp
	+include/ncbi-tools++/util/row_reader_iana_csv.hpp
	+include/ncbi-tools++/util/row_reader_iana_tsv.hpp
	+include/ncbi-tools++/util/row_reader_ncbi_tsv.hpp
	include/ncbi-tools++/util/scheduler.hpp
	include/ncbi-tools++/util/sequtil/sequtil.hpp
	include/ncbi-tools++/util/sequtil/sequtil_convert.hpp
	@@ -3748,258 +3725,266 @@
	include/ncbi-tools++/util/xregexp/mask_regexp.hpp
	include/ncbi-tools++/util/xregexp/regexp.hpp
	include/ncbi-tools++/util/xregexp/regexp_template_tester.hpp
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	+lib/ncbi-tools++/libtrackmgr.a
	+lib/ncbi-tools++/libtrackmgrcli-static.a
	+lib/ncbi-tools++/libtrackmgrcli.a
	+lib/ncbi-tools++/libtrackmgrgridcli-static.a
	+lib/ncbi-tools++/libtrackmgrgridcli.a
	+lib/ncbi-tools++/libvalerr-static.a
	+lib/ncbi-tools++/libvalerr.a
	+lib/ncbi-tools++/libvalid-static.a
	+lib/ncbi-tools++/libvalid.a
	+lib/ncbi-tools++/libvariation-static.a
	+lib/ncbi-tools++/libvariation.a
	+lib/ncbi-tools++/libvarrep-static.a
	+lib/ncbi-tools++/libvarrep.a
	+lib/ncbi-tools++/libwritedb-static.a
	+lib/ncbi-tools++/libwritedb.a
	+lib/ncbi-tools++/libxalgoblastdbindex-static.a
	+lib/ncbi-tools++/libxalgoblastdbindex.a
	+lib/ncbi-tools++/libxalgodustmask-static.a
	+lib/ncbi-tools++/libxalgodustmask.a
	+lib/ncbi-tools++/libxalgosegmask-static.a
	+lib/ncbi-tools++/libxalgosegmask.a
	+lib/ncbi-tools++/libxalgowinmask-static.a
	+lib/ncbi-tools++/libxalgowinmask.a
	+lib/ncbi-tools++/libxalnmgr-static.a
	+lib/ncbi-tools++/libxalnmgr.a
	+lib/ncbi-tools++/libxblast-static.a
	+lib/ncbi-tools++/libxblast.a
	+lib/ncbi-tools++/libxblastformat-static.a
	+lib/ncbi-tools++/libxblastformat.a
	+lib/ncbi-tools++/libxcgi-static.a
	+lib/ncbi-tools++/libxcgi.a
	+lib/ncbi-tools++/libxcleanup-static.a
	+lib/ncbi-tools++/libxcleanup.a
	+lib/ncbi-tools++/libxcompress-static.a
	+lib/ncbi-tools++/libxcompress.a
	+lib/ncbi-tools++/libxconnect-static.a
	+lib/ncbi-tools++/libxconnect.a
	+lib/ncbi-tools++/libxconnserv-static.a
	+lib/ncbi-tools++/libxconnserv.a
	+lib/ncbi-tools++/libxcser-static.a
	+lib/ncbi-tools++/libxcser.a
	+lib/ncbi-tools++/libxfcgi-static.a
	+lib/ncbi-tools++/libxfcgi.a
	+lib/ncbi-tools++/libxformat-static.a
	+lib/ncbi-tools++/libxformat.a
	+lib/ncbi-tools++/libxhtml-static.a
	+lib/ncbi-tools++/libxhtml.a
	+lib/ncbi-tools++/libxncbi-static.a
	+lib/ncbi-tools++/libxncbi.a
	+lib/ncbi-tools++/libxnetblast-static.a
	+lib/ncbi-tools++/libxnetblast.a
	+lib/ncbi-tools++/libxnetblastcli-static.a
	+lib/ncbi-tools++/libxnetblastcli.a
	+lib/ncbi-tools++/libxobjedit-static.a
	+lib/ncbi-tools++/libxobjedit.a
	+lib/ncbi-tools++/libxobjmgr-static.a
	+lib/ncbi-tools++/libxobjmgr.a
	+lib/ncbi-tools++/libxobjread-static.a
	+lib/ncbi-tools++/libxobjread.a
	+lib/ncbi-tools++/libxobjreadex-static.a
	+lib/ncbi-tools++/libxobjreadex.a
	+lib/ncbi-tools++/libxobjsimple-static.a
	+lib/ncbi-tools++/libxobjsimple.a
	+lib/ncbi-tools++/libxobjutil-static.a
	+lib/ncbi-tools++/libxobjutil.a
	+lib/ncbi-tools++/libxregexp-static.a
	+lib/ncbi-tools++/libxregexp.a
	+lib/ncbi-tools++/libxregexp_template_tester-static.a
	+lib/ncbi-tools++/libxregexp_template_tester.a
	+lib/ncbi-tools++/libxser-static.a
	+lib/ncbi-tools++/libxser.a
	+lib/ncbi-tools++/libxthrserv-static.a
	+lib/ncbi-tools++/libxthrserv.a
	+lib/ncbi-tools++/libxutil-static.a
	+lib/ncbi-tools++/libxutil.a
	+lib/ncbi-tools++/libxxconnect-static.a
	+lib/ncbi-tools++/libxxconnect.a
	+@dir lib/ncbi-tools++/X11/app-defaults
	+@dir lib/ncbi-tools++/debug

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