diff options
Diffstat (limited to 'sci-biology/ncbi-tools++/files/ncbi-tools++-9.0.0-as-needed.patch')
| -rw-r--r-- | sci-biology/ncbi-tools++/files/ncbi-tools++-9.0.0-as-needed.patch | 380 |
1 files changed, 357 insertions, 23 deletions
diff --git a/sci-biology/ncbi-tools++/files/ncbi-tools++-9.0.0-as-needed.patch b/sci-biology/ncbi-tools++/files/ncbi-tools++-9.0.0-as-needed.patch index 7763361e7..e3110deb4 100644 --- a/sci-biology/ncbi-tools++/files/ncbi-tools++-9.0.0-as-needed.patch +++ b/sci-biology/ncbi-tools++/files/ncbi-tools++-9.0.0-as-needed.patch @@ -1,4 +1,6 @@ src/algo/blast/blastinput/Makefile.blastinput.lib | 2 +- + src/algo/blast/core/Makefile.blast.lib | 2 ++ + src/algo/cobalt/Makefile.cobalt.lib | 2 ++ src/algo/ms/omssa/Makefile.xomssa.lib | 2 ++ src/algo/sequence/Makefile.xalgoseq.lib | 2 ++ src/algo/winmask/Makefile.xalgowinmask.lib | 1 + @@ -25,14 +27,27 @@ src/html/Makefile.html.lib | 2 ++ src/objects/access/Makefile.access.lib | 1 + src/objects/biblio/Makefile.biblio.lib | 2 ++ + src/objects/biotree/Makefile.biotree.lib | 2 ++ src/objects/blast/Makefile.blast.lib | 2 ++ src/objects/blast/Makefile.xnetblastcli.lib | 2 ++ + src/objects/blastdb/Makefile.blastdb.lib | 2 ++ + src/objects/blastxml/Makefile.blastxml.lib | 2 ++ src/objects/cdd/Makefile.cdd.lib | 2 ++ src/objects/cn3d/Makefile.cn3d.lib | 2 ++ + src/objects/docsum/Makefile.docsum.lib | 2 ++ + src/objects/entrez2/Makefile.entrez2.lib | 2 ++ + src/objects/entrezgene/Makefile.entrezgene.lib | 2 ++ + src/objects/featdef/Makefile.featdef.lib | 2 ++ + src/objects/gbseq/Makefile.gbseq.lib | 2 ++ src/objects/general/Makefile.general.lib | 2 ++ + src/objects/genomecoll/Makefile.genome_collection.lib | 2 ++ + src/objects/homologene/Makefile.homologene.lib | 2 ++ + src/objects/id1/Makefile.id1.lib | 2 ++ src/objects/id2/Makefile.id2.lib | 2 ++ + src/objects/insdseq/Makefile.insdseq.lib | 2 ++ src/objects/medlars/Makefile.medlars.lib | 2 ++ src/objects/medline/Makefile.medline.lib | 2 ++ + src/objects/mmdb/Makefile.mmdb.lib | 2 ++ src/objects/ncbimime/Makefile.ncbimime.lib | 2 ++ src/objects/omssa/Makefile.omssa.lib | 2 ++ src/objects/pub/Makefile.pub.lib | 2 ++ @@ -44,32 +59,48 @@ src/objects/seqsplit/Makefile.seqsplit.lib | 2 ++ src/objects/submit/Makefile.submit.lib | 1 + src/objects/taxon1/Makefile.taxon1.lib | 2 ++ + src/objects/taxon3/Makefile.taxon3.lib | 2 ++ src/objects/valerr/Makefile.valerr.lib | 2 ++ src/objects/valid/Makefile.valid.lib | 2 ++ src/objects/variation/Makefile.variation.lib | 1 + src/objmgr/util/Makefile.util.lib | 1 + src/objtools/align_format/Makefile.align_format.lib | 2 ++ + src/objtools/alnmgr/Makefile.alnmgr.lib | 1 + + src/objtools/blast/blastdb_format/Makefile.blastdb_format.lib | 2 ++ src/objtools/blast/seqdb_reader/Makefile.seqdb.lib | 2 ++ + src/objtools/blast/services/Makefile.blast_services.lib | 1 + src/objtools/data_loaders/blastdb/Makefile.ncbi_xloader_blastdb.lib | 3 +++ src/objtools/data_loaders/genbank/Makefile.ncbi_xreader.lib | 2 +- + src/objtools/eutils/egquery/Makefile.egquery.lib | 2 ++ + src/objtools/eutils/ehistory/Makefile.ehistory.lib | 2 ++ + src/objtools/eutils/einfo/Makefile.einfo.lib | 2 ++ + src/objtools/eutils/elink/Makefile.elink.lib | 2 ++ + src/objtools/eutils/epost/Makefile.epost.lib | 2 ++ + src/objtools/eutils/esearch/Makefile.esearch.lib | 2 ++ + src/objtools/eutils/espell/Makefile.espell.lib | 2 ++ + src/objtools/eutils/esummary/Makefile.esummary.lib | 2 ++ + src/objtools/eutils/linkout/Makefile.linkout.lib | 2 ++ + src/objtools/format/Makefile.xformat.lib | 2 ++ src/objtools/readers/Makefile.xobjread.lib | 3 +-- src/objtools/readers/Makefile.xobjreadex.lib | 2 +- src/objtools/simple/Makefile.xobjsimple.lib | 1 + src/objtools/validator/Makefile.validator.lib | 2 ++ + src/objtools/writers/Makefile.xobjwrite.lib | 1 + src/serial/Makefile.serial.lib | 2 ++ src/serial/soap/Makefile.soap.lib | 2 ++ src/serial/soap/Makefile.soap_server.lib | 2 ++ src/serial/test/Makefile.we_cpp.lib | 1 + + src/sra/sdk/libs/align/Makefile.align-writer.lib | 2 +- src/util/Makefile.util.lib | 2 ++ src/util/compress/api/Makefile.compress.lib | 2 +- src/util/qparse/Makefile.xqueryparse.lib | 2 ++ src/util/regexp/Makefile.regexp.lib | 2 ++ src/util/sequtil/Makefile.sequtil.lib | 2 ++ src/util/xregexp/Makefile.xregexp.lib | 2 +- - 68 files changed, 124 insertions(+), 12 deletions(-) + 99 files changed, 182 insertions(+), 13 deletions(-) diff --git a/src/algo/blast/blastinput/Makefile.blastinput.lib b/src/algo/blast/blastinput/Makefile.blastinput.lib -index bfb315c..25873a2 100644 +index bfb315c..6f56c5a 100644 --- a/src/algo/blast/blastinput/Makefile.blastinput.lib +++ b/src/algo/blast/blastinput/Makefile.blastinput.lib @@ -24,7 +24,7 @@ SRC = $(SRC_CXX) @@ -77,12 +108,32 @@ index bfb315c..25873a2 100644 LIB = blastinput -DLL_LIB = xblast $(OBJMGR_LIBS) -+DLL_LIB = xblast seqdb $(OBJMGR_LIBS) ++DLL_LIB = seqdb ncbi_xloader_blastdb $(OBJMGR_LIBS) # should be redundant, given the above :-/ ASN_DEP = seqset xnetblast +diff --git a/src/algo/blast/core/Makefile.blast.lib b/src/algo/blast/core/Makefile.blast.lib +index 8e889a7..1326aee 100644 +--- a/src/algo/blast/core/Makefile.blast.lib ++++ b/src/algo/blast/core/Makefile.blast.lib +@@ -23,3 +23,5 @@ LDFLAGS = $(FAST_LDFLAGS) + + + WATCHERS = coulouri maning madden camacho ++ ++DLL_LIB = xutil +diff --git a/src/algo/cobalt/Makefile.cobalt.lib b/src/algo/cobalt/Makefile.cobalt.lib +index e618f67..32905ca 100644 +--- a/src/algo/cobalt/Makefile.cobalt.lib ++++ b/src/algo/cobalt/Makefile.cobalt.lib +@@ -14,3 +14,5 @@ ASN_DEP = seq seqset biotree xnetblast blastdb + + CXXFLAGS = $(FAST_CXXFLAGS) + LDFLAGS = $(FAST_LDFLAGS) ++ ++DLL_LIB = align_format diff --git a/src/algo/ms/omssa/Makefile.xomssa.lib b/src/algo/ms/omssa/Makefile.xomssa.lib -index 872b92e..82cc8b6 100644 +index 872b92e..bb66af9 100644 --- a/src/algo/ms/omssa/Makefile.xomssa.lib +++ b/src/algo/ms/omssa/Makefile.xomssa.lib @@ -19,3 +19,5 @@ LIB = xomssa @@ -90,7 +141,7 @@ index 872b92e..82cc8b6 100644 CXXFLAGS = $(FAST_CXXFLAGS) LDFLAGS = $(FAST_LDFLAGS) + -+DLL_LIB = xutil ++DLL_LIB = xutil omssa diff --git a/src/algo/sequence/Makefile.xalgoseq.lib b/src/algo/sequence/Makefile.xalgoseq.lib index 51f4cd7..0c20790 100644 --- a/src/algo/sequence/Makefile.xalgoseq.lib @@ -347,13 +398,13 @@ index a57c1e3..0005299 100644 + +DLL_LIB = xncbi xutil diff --git a/src/objects/access/Makefile.access.lib b/src/objects/access/Makefile.access.lib -index 11421d9..cf3a300 100644 +index 11421d9..e7900a1 100644 --- a/src/objects/access/Makefile.access.lib +++ b/src/objects/access/Makefile.access.lib @@ -1,2 +1,3 @@ LIB = access SRC = access__ access___ -+DLL_LIB = xncbi ++DLL_LIB = xncbi xser diff --git a/src/objects/biblio/Makefile.biblio.lib b/src/objects/biblio/Makefile.biblio.lib index 2c7d491..cb54ba6 100644 --- a/src/objects/biblio/Makefile.biblio.lib @@ -363,6 +414,16 @@ index 2c7d491..cb54ba6 100644 SRC = biblio__ biblio___ citation_base + +DLL_LIB = general xser xncbi xutil +diff --git a/src/objects/biotree/Makefile.biotree.lib b/src/objects/biotree/Makefile.biotree.lib +index 8019285..2c689ae 100644 +--- a/src/objects/biotree/Makefile.biotree.lib ++++ b/src/objects/biotree/Makefile.biotree.lib +@@ -1,3 +1,5 @@ + ASN_DEP = seq seqset + LIB = biotree + SRC = biotree__ biotree___ ++ ++DLL_LIB = xncbi xser diff --git a/src/objects/blast/Makefile.blast.lib b/src/objects/blast/Makefile.blast.lib index 0dd0fa3..5ffe052 100644 --- a/src/objects/blast/Makefile.blast.lib @@ -383,17 +444,35 @@ index 96325c4..5a72805 100644 SRC = blastclient blastclient_ + +DLL_LIB = xncbi xutil seqset connect xconnect xnetblast +diff --git a/src/objects/blastdb/Makefile.blastdb.lib b/src/objects/blastdb/Makefile.blastdb.lib +index be2c0d1..2884db2 100644 +--- a/src/objects/blastdb/Makefile.blastdb.lib ++++ b/src/objects/blastdb/Makefile.blastdb.lib +@@ -1,2 +1,4 @@ + LIB = blastdb + SRC = blastdb__ blastdb___ ++ ++DLL_LIB = xncbi xser seq +diff --git a/src/objects/blastxml/Makefile.blastxml.lib b/src/objects/blastxml/Makefile.blastxml.lib +index d18eb78..f90501d 100644 +--- a/src/objects/blastxml/Makefile.blastxml.lib ++++ b/src/objects/blastxml/Makefile.blastxml.lib +@@ -1,2 +1,4 @@ + LIB = blastxml + SRC = blastxml__ blastxml___ ++ ++DLL_LIB = xser diff --git a/src/objects/cdd/Makefile.cdd.lib b/src/objects/cdd/Makefile.cdd.lib -index 978cae9..e3176b2 100644 +index 978cae9..35e5190 100644 --- a/src/objects/cdd/Makefile.cdd.lib +++ b/src/objects/cdd/Makefile.cdd.lib @@ -1,2 +1,4 @@ LIB = cdd SRC = cdd__ cdd___ + -+DLL_LIB = mmdb ++DLL_LIB = mmdb xser diff --git a/src/objects/cn3d/Makefile.cn3d.lib b/src/objects/cn3d/Makefile.cn3d.lib -index 1af5d1d..b34a966 100644 +index 1af5d1d..ecd31b2 100644 --- a/src/objects/cn3d/Makefile.cn3d.lib +++ b/src/objects/cn3d/Makefile.cn3d.lib @@ -1,3 +1,5 @@ @@ -401,7 +480,53 @@ index 1af5d1d..b34a966 100644 LIB = cn3d SRC = cn3d__ cn3d___ + -+DLL_LIB = mmdb ++DLL_LIB = mmdb xser +diff --git a/src/objects/docsum/Makefile.docsum.lib b/src/objects/docsum/Makefile.docsum.lib +index 0e68886..0bc8a1c 100644 +--- a/src/objects/docsum/Makefile.docsum.lib ++++ b/src/objects/docsum/Makefile.docsum.lib +@@ -1,2 +1,4 @@ + LIB = docsum + SRC = docsum__ docsum___ ++ ++DLL_LIB = xser +diff --git a/src/objects/entrez2/Makefile.entrez2.lib b/src/objects/entrez2/Makefile.entrez2.lib +index 4507f72..4c47ad3 100644 +--- a/src/objects/entrez2/Makefile.entrez2.lib ++++ b/src/objects/entrez2/Makefile.entrez2.lib +@@ -2,3 +2,5 @@ WATCHERS = lavr + + LIB = entrez2 + SRC = entrez2__ entrez2___ ++ ++DLL_LIB = xser +diff --git a/src/objects/entrezgene/Makefile.entrezgene.lib b/src/objects/entrezgene/Makefile.entrezgene.lib +index a1bd4f4..e9e8c29 100644 +--- a/src/objects/entrezgene/Makefile.entrezgene.lib ++++ b/src/objects/entrezgene/Makefile.entrezgene.lib +@@ -1,2 +1,4 @@ + LIB = entrezgene + SRC = entrezgene__ entrezgene___ ++ ++DLL_LIB = xser +diff --git a/src/objects/featdef/Makefile.featdef.lib b/src/objects/featdef/Makefile.featdef.lib +index 51c7c8d..e603711 100644 +--- a/src/objects/featdef/Makefile.featdef.lib ++++ b/src/objects/featdef/Makefile.featdef.lib +@@ -1,2 +1,4 @@ + LIB = featdef + SRC = featdef__ featdef___ ++ ++DLL_LIB = xser +diff --git a/src/objects/gbseq/Makefile.gbseq.lib b/src/objects/gbseq/Makefile.gbseq.lib +index 9dabdeb..4b27881 100644 +--- a/src/objects/gbseq/Makefile.gbseq.lib ++++ b/src/objects/gbseq/Makefile.gbseq.lib +@@ -1,2 +1,4 @@ + LIB = gbseq + SRC = gbseq__ gbseq___ ++ ++DLL_LIB = xser diff --git a/src/objects/general/Makefile.general.lib b/src/objects/general/Makefile.general.lib index 951304f..3be083d 100644 --- a/src/objects/general/Makefile.general.lib @@ -411,6 +536,36 @@ index 951304f..3be083d 100644 SRC = general__ general___ uoconv + +DLL_LIB = xser xncbi xutil +diff --git a/src/objects/genomecoll/Makefile.genome_collection.lib b/src/objects/genomecoll/Makefile.genome_collection.lib +index f039af6..eba769c 100644 +--- a/src/objects/genomecoll/Makefile.genome_collection.lib ++++ b/src/objects/genomecoll/Makefile.genome_collection.lib +@@ -4,3 +4,5 @@ LIB = genome_collection + SRC = genome_collection__ genome_collection___ + + WATCHERS = dicuccio ++ ++DLL_LIB = xser +diff --git a/src/objects/homologene/Makefile.homologene.lib b/src/objects/homologene/Makefile.homologene.lib +index 15d13ad..2417439 100644 +--- a/src/objects/homologene/Makefile.homologene.lib ++++ b/src/objects/homologene/Makefile.homologene.lib +@@ -4,3 +4,5 @@ + + LIB = homologene + SRC = homologene__ homologene___ ++ ++DLL_LIB = xser +diff --git a/src/objects/id1/Makefile.id1.lib b/src/objects/id1/Makefile.id1.lib +index d60c728..06b4f84 100644 +--- a/src/objects/id1/Makefile.id1.lib ++++ b/src/objects/id1/Makefile.id1.lib +@@ -4,3 +4,5 @@ LIB = id1 + SRC = id1__ id1___ + + WATCHERS = vasilche ++ ++DLL_LIB = xser diff --git a/src/objects/id2/Makefile.id2.lib b/src/objects/id2/Makefile.id2.lib index 09d8b36..b25700d 100644 --- a/src/objects/id2/Makefile.id2.lib @@ -421,6 +576,15 @@ index 09d8b36..b25700d 100644 WATCHERS = vasilche + +DLL_LIB = xser +diff --git a/src/objects/insdseq/Makefile.insdseq.lib b/src/objects/insdseq/Makefile.insdseq.lib +index fa729b7..5754057 100644 +--- a/src/objects/insdseq/Makefile.insdseq.lib ++++ b/src/objects/insdseq/Makefile.insdseq.lib +@@ -1,2 +1,4 @@ + LIB = insdseq + SRC = insdseq__ insdseq___ ++ ++DLL_LIB = xser diff --git a/src/objects/medlars/Makefile.medlars.lib b/src/objects/medlars/Makefile.medlars.lib index 3a6d0cd..5230940 100644 --- a/src/objects/medlars/Makefile.medlars.lib @@ -439,6 +603,16 @@ index ea28066..eb42aa4 100644 SRC = medline__ medline___ + +DLL_LIB = general biblio +diff --git a/src/objects/mmdb/Makefile.mmdb.lib b/src/objects/mmdb/Makefile.mmdb.lib +index 6fc8e25..5c6c100 100644 +--- a/src/objects/mmdb/Makefile.mmdb.lib ++++ b/src/objects/mmdb/Makefile.mmdb.lib +@@ -8,3 +8,5 @@ CPPFLAGS = -I$(srcdir) -I$(top_srcdir)/src/objects/mmdb $(ORIG_CPPFLAGS) + + LIB = mmdb + SRC = $(ASN:%=%__) $(ASN:%=%___) ++ ++DLL_LIB = xser pub seq diff --git a/src/objects/ncbimime/Makefile.ncbimime.lib b/src/objects/ncbimime/Makefile.ncbimime.lib index 93cafdf..e5aa4eb 100644 --- a/src/objects/ncbimime/Makefile.ncbimime.lib @@ -523,13 +697,13 @@ index 87ae869..a693f50 100644 + +DLL_LIB = xser diff --git a/src/objects/submit/Makefile.submit.lib b/src/objects/submit/Makefile.submit.lib -index 74798f8..34dd5a8 100644 +index 74798f8..9001a87 100644 --- a/src/objects/submit/Makefile.submit.lib +++ b/src/objects/submit/Makefile.submit.lib @@ -1,2 +1,3 @@ LIB = submit SRC = submit__ submit___ -+DLL_LIB = xser xncbi # lds ++DLL_LIB = xser xncbi seq # lds diff --git a/src/objects/taxon1/Makefile.taxon1.lib b/src/objects/taxon1/Makefile.taxon1.lib index 61658ab..d735117 100644 --- a/src/objects/taxon1/Makefile.taxon1.lib @@ -540,6 +714,16 @@ index 61658ab..d735117 100644 WATCHERS = domrach + +DLL_LIB = xser +diff --git a/src/objects/taxon3/Makefile.taxon3.lib b/src/objects/taxon3/Makefile.taxon3.lib +index 7e4c93d..5a6033e 100644 +--- a/src/objects/taxon3/Makefile.taxon3.lib ++++ b/src/objects/taxon3/Makefile.taxon3.lib +@@ -4,3 +4,5 @@ LIB = taxon3 + SRC = taxon3__ taxon3___ taxon3 + + WATCHERS = bollin ++ ++DLL_LIB = connect diff --git a/src/objects/valerr/Makefile.valerr.lib b/src/objects/valerr/Makefile.valerr.lib index b202355..9699bb2 100644 --- a/src/objects/valerr/Makefile.valerr.lib @@ -551,7 +735,7 @@ index b202355..9699bb2 100644 + +DLL_LIB = xser diff --git a/src/objects/valid/Makefile.valid.lib b/src/objects/valid/Makefile.valid.lib -index 86a00a0..ee7402f 100644 +index 86a00a0..64226d6 100644 --- a/src/objects/valid/Makefile.valid.lib +++ b/src/objects/valid/Makefile.valid.lib @@ -1,3 +1,5 @@ @@ -559,7 +743,7 @@ index 86a00a0..ee7402f 100644 LIB = valid SRC = valid__ valid___ + -+DLL_LIB = xser ++DLL_LIB = xser xregexp diff --git a/src/objects/variation/Makefile.variation.lib b/src/objects/variation/Makefile.variation.lib index f21f84a..b08e210 100644 --- a/src/objects/variation/Makefile.variation.lib @@ -578,7 +762,7 @@ index 90eeee0..138e836 100644 +DLL_LIB = xser xobjmgr diff --git a/src/objtools/align_format/Makefile.align_format.lib b/src/objtools/align_format/Makefile.align_format.lib -index 4b3e59e..94fc319 100644 +index 4b3e59e..d8e9345 100644 --- a/src/objtools/align_format/Makefile.align_format.lib +++ b/src/objtools/align_format/Makefile.align_format.lib @@ -18,3 +18,5 @@ CPPFLAGS = $(ORIG_CPPFLAGS) @@ -586,7 +770,26 @@ index 4b3e59e..94fc319 100644 WATCHERS = zaretska jianye madden camacho + -+DLL_LIB = seqdb blastdb ++DLL_LIB = seqdb blastdb xser +diff --git a/src/objtools/alnmgr/Makefile.alnmgr.lib b/src/objtools/alnmgr/Makefile.alnmgr.lib +index e32c351..1702b90 100644 +--- a/src/objtools/alnmgr/Makefile.alnmgr.lib ++++ b/src/objtools/alnmgr/Makefile.alnmgr.lib +@@ -12,3 +12,4 @@ SRC = aln_builders aln_converters aln_generators aln_seqid aln_serial \ + + WATCHERS = todorov dicuccio grichenk + ++DLL_LIB = tables +diff --git a/src/objtools/blast/blastdb_format/Makefile.blastdb_format.lib b/src/objtools/blast/blastdb_format/Makefile.blastdb_format.lib +index d8177ed..f7beead 100644 +--- a/src/objtools/blast/blastdb_format/Makefile.blastdb_format.lib ++++ b/src/objtools/blast/blastdb_format/Makefile.blastdb_format.lib +@@ -18,3 +18,5 @@ CPPFLAGS = $(ORIG_CPPFLAGS) + # CXXFLAGS = $(FAST_CXXFLAGS) + # + # LIB_OR_DLL = dll ++ ++DLL_LIB = xncbi xser xobjutil seq diff --git a/src/objtools/blast/seqdb_reader/Makefile.seqdb.lib b/src/objtools/blast/seqdb_reader/Makefile.seqdb.lib index 25898aa..92d4d59 100644 --- a/src/objtools/blast/seqdb_reader/Makefile.seqdb.lib @@ -597,6 +800,15 @@ index 25898aa..92d4d59 100644 WATCHERS = maning camacho + +DLL_LIB = blastdb +diff --git a/src/objtools/blast/services/Makefile.blast_services.lib b/src/objtools/blast/services/Makefile.blast_services.lib +index 10a878c..7a70b22 100644 +--- a/src/objtools/blast/services/Makefile.blast_services.lib ++++ b/src/objtools/blast/services/Makefile.blast_services.lib +@@ -12,3 +12,4 @@ CFLAGS = $(FAST_CFLAGS) + CXXFLAGS = $(FAST_CXXFLAGS) + LDFLAGS = $(FAST_LDFLAGS) + ++DLL_LIB = xncbi xser xnetblast xnetblastcli diff --git a/src/objtools/data_loaders/blastdb/Makefile.ncbi_xloader_blastdb.lib b/src/objtools/data_loaders/blastdb/Makefile.ncbi_xloader_blastdb.lib index 80af69f..704ed7a 100644 --- a/src/objtools/data_loaders/blastdb/Makefile.ncbi_xloader_blastdb.lib @@ -620,6 +832,106 @@ index f2b2b49..a8ee667 100644 +DLL_LIB = xcompress WATCHERS = vasilche +diff --git a/src/objtools/eutils/egquery/Makefile.egquery.lib b/src/objtools/eutils/egquery/Makefile.egquery.lib +index 82b4ed0..7030a29 100644 +--- a/src/objtools/eutils/egquery/Makefile.egquery.lib ++++ b/src/objtools/eutils/egquery/Makefile.egquery.lib +@@ -4,3 +4,5 @@ LIB = egquery + SRC = egquery__ egquery___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/ehistory/Makefile.ehistory.lib b/src/objtools/eutils/ehistory/Makefile.ehistory.lib +index f99ca0f..5683a74 100644 +--- a/src/objtools/eutils/ehistory/Makefile.ehistory.lib ++++ b/src/objtools/eutils/ehistory/Makefile.ehistory.lib +@@ -4,3 +4,5 @@ LIB = ehistory + SRC = ehistory__ ehistory___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/einfo/Makefile.einfo.lib b/src/objtools/eutils/einfo/Makefile.einfo.lib +index e18413d..7eaee71 100644 +--- a/src/objtools/eutils/einfo/Makefile.einfo.lib ++++ b/src/objtools/eutils/einfo/Makefile.einfo.lib +@@ -4,3 +4,5 @@ LIB = einfo + SRC = einfo__ einfo___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/elink/Makefile.elink.lib b/src/objtools/eutils/elink/Makefile.elink.lib +index 87f352c..692835c 100644 +--- a/src/objtools/eutils/elink/Makefile.elink.lib ++++ b/src/objtools/eutils/elink/Makefile.elink.lib +@@ -4,3 +4,5 @@ LIB = elink + SRC = elink__ elink___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/epost/Makefile.epost.lib b/src/objtools/eutils/epost/Makefile.epost.lib +index 4a456ed..d73f41b 100644 +--- a/src/objtools/eutils/epost/Makefile.epost.lib ++++ b/src/objtools/eutils/epost/Makefile.epost.lib +@@ -4,3 +4,5 @@ LIB = epost + SRC = epost__ epost___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/esearch/Makefile.esearch.lib b/src/objtools/eutils/esearch/Makefile.esearch.lib +index bb5b64b..71912da 100644 +--- a/src/objtools/eutils/esearch/Makefile.esearch.lib ++++ b/src/objtools/eutils/esearch/Makefile.esearch.lib +@@ -4,3 +4,5 @@ LIB = esearch + SRC = esearch__ esearch___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/espell/Makefile.espell.lib b/src/objtools/eutils/espell/Makefile.espell.lib +index 7cf1a34..25be846 100644 +--- a/src/objtools/eutils/espell/Makefile.espell.lib ++++ b/src/objtools/eutils/espell/Makefile.espell.lib +@@ -4,3 +4,5 @@ LIB = espell + SRC = espell__ espell___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/esummary/Makefile.esummary.lib b/src/objtools/eutils/esummary/Makefile.esummary.lib +index 4d3e058..1f74c06 100644 +--- a/src/objtools/eutils/esummary/Makefile.esummary.lib ++++ b/src/objtools/eutils/esummary/Makefile.esummary.lib +@@ -4,3 +4,5 @@ LIB = esummary + SRC = esummary__ esummary___ + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/eutils/linkout/Makefile.linkout.lib b/src/objtools/eutils/linkout/Makefile.linkout.lib +index 19b2b8a..77dcc3c 100644 +--- a/src/objtools/eutils/linkout/Makefile.linkout.lib ++++ b/src/objtools/eutils/linkout/Makefile.linkout.lib +@@ -4,3 +4,5 @@ SRC = linkout__ linkout___ + LIB = linkout + + WATCHERS = grichenk ++ ++DLL_LIB = xser +diff --git a/src/objtools/format/Makefile.xformat.lib b/src/objtools/format/Makefile.xformat.lib +index a4fc469..3f771e6 100644 +--- a/src/objtools/format/Makefile.xformat.lib ++++ b/src/objtools/format/Makefile.xformat.lib +@@ -19,3 +19,5 @@ SRC = accession_item basecount_item comment_item contig_item date_item \ + gather_iter html_anchor_item inst_info_map + + WATCHERS = ludwigf dicuccio kornbluh ++ ++DLL_LIB = submit connect xncbi diff --git a/src/objtools/readers/Makefile.xobjread.lib b/src/objtools/readers/Makefile.xobjread.lib index 0fbffd4..4ca9fed 100644 --- a/src/objtools/readers/Makefile.xobjread.lib @@ -632,7 +944,7 @@ index 0fbffd4..4ca9fed 100644 - +DLL_LIB = creaders xncbi seq biblio seqset diff --git a/src/objtools/readers/Makefile.xobjreadex.lib b/src/objtools/readers/Makefile.xobjreadex.lib -index 85eefe2..f238782 100644 +index 85eefe2..9f317ae 100644 --- a/src/objtools/readers/Makefile.xobjreadex.lib +++ b/src/objtools/readers/Makefile.xobjreadex.lib @@ -8,4 +8,4 @@ LIB = xobjreadex @@ -640,18 +952,18 @@ index 85eefe2..f238782 100644 idmapper_database source_mod_parser_wrapper -DLL_LIB = xobjread -+DLL_LIB = xobjread xncbi xutil seq xobjmgr ++DLL_LIB = xobjread xncbi xutil seq xobjmgr xobjutil diff --git a/src/objtools/simple/Makefile.xobjsimple.lib b/src/objtools/simple/Makefile.xobjsimple.lib -index dab25d6..a29b960 100644 +index dab25d6..f676dc7 100644 --- a/src/objtools/simple/Makefile.xobjsimple.lib +++ b/src/objtools/simple/Makefile.xobjsimple.lib @@ -10,3 +10,4 @@ ASN_DEP = seqset LIB = xobjsimple SRC = simple_om -+DLL_LIB = xobjmgr ++DLL_LIB = xobjmgr ncbi_xloader_genbank diff --git a/src/objtools/validator/Makefile.validator.lib b/src/objtools/validator/Makefile.validator.lib -index 80a74d8..69c4ef6 100644 +index 80a74d8..6eec94b 100644 --- a/src/objtools/validator/Makefile.validator.lib +++ b/src/objtools/validator/Makefile.validator.lib @@ -19,3 +19,5 @@ NOOPT_CXX = $(CXX_WRAPPER) $(CXX) $(CXXFLAGS_ALL:-xO%=) @@ -659,7 +971,16 @@ index 80a74d8..69c4ef6 100644 lat_lon_country_map.o: $(srcdir)/lat_lon_country_map.cpp $(NOOPT_CXX) $(srcdir)/lat_lon_country_map.cpp -o $@ $(CXX_FILTER) + -+DLL_LIB = xncbi xobjutil xalnmgr ++DLL_LIB = xncbi xobjutil xalnmgr xformat taxon3 valerr valid +diff --git a/src/objtools/writers/Makefile.xobjwrite.lib b/src/objtools/writers/Makefile.xobjwrite.lib +index cd6596b..b0d97b1 100644 +--- a/src/objtools/writers/Makefile.xobjwrite.lib ++++ b/src/objtools/writers/Makefile.xobjwrite.lib +@@ -15,3 +15,4 @@ SRC = agp_write \ + + WATCHERS = ludwigf boukn + ++DLL_LIB = xobjutil diff --git a/src/serial/Makefile.serial.lib b/src/serial/Makefile.serial.lib index 2563b5f..efad054 100644 --- a/src/serial/Makefile.serial.lib @@ -699,6 +1020,19 @@ index 9877691..599ef5d 100644 WATCHERS = gouriano +DLL_LIB = xncbi xutil xser +diff --git a/src/sra/sdk/libs/align/Makefile.align-writer.lib b/src/sra/sdk/libs/align/Makefile.align-writer.lib +index f2a2f58..f61b25a 100644 +--- a/src/sra/sdk/libs/align/Makefile.align-writer.lib ++++ b/src/sra/sdk/libs/align/Makefile.align-writer.lib +@@ -6,7 +6,7 @@ LIB = align-writer + SRC = dna-reverse-cmpl reader-cmn reader-refseq refseq-mgr writer-cmn \ + writer-refseq writer-alignment writer-sequence writer-ref writer-reference + +-DLL_LIB = wvdb wkdb load kfg kfs klib $(Z_LIB) ++DLL_LIB = wvdb wkdb load kfg kfs klib kapp $(Z_LIB) + LIBS = $(Z_LIBS) $(ORIG_LIBS) + + CPPFLAGS = $(SRA_INCLUDE) $(SRA_INTERNAL_CPPFLAGS) -D_LIBRARY $(ORIG_CPPFLAGS) diff --git a/src/util/Makefile.util.lib b/src/util/Makefile.util.lib index f103ff1..829a71c 100644 --- a/src/util/Makefile.util.lib |