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jlec 10/06/26 11:04:59 |
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Added: ncbi-tools++-2009.05.15-asneeded.patch |
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Log: |
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Fixed as-needed problem |
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(Portage version: 2.2_rc67/cvs/Linux x86_64) |
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Revision Changes Path |
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1.1 sci-biology/ncbi-tools++/files/ncbi-tools++-2009.05.15-asneeded.patch |
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file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/ncbi-tools++/files/ncbi-tools++-2009.05.15-asneeded.patch?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/ncbi-tools++/files/ncbi-tools++-2009.05.15-asneeded.patch?rev=1.1&content-type=text/plain |
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Index: ncbi-tools++-2009.05.15-asneeded.patch |
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=================================================================== |
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--- src/build-system/Makefile.mk.in |
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+++ src/build-system/Makefile.mk.in |
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@@ -547,7 +547,7 @@ |
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################################# |
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# Useful sets of object libraries |
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# Interdependent sequence libraries + seqcode. Does not include seqset. |
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-COMPRESS_LDEP = $(CMPRS_LIB) |
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+COMPRESS_LDEP = $(CMPRS_LIB) xutil xncbi |
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COMPRESS_LIBS = xcompress $(COMPRESS_LDEP) |
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|
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GENBANK_LDEP = \ |
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--- src/util/compress/Makefile.compress.lib |
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+++ src/util/compress/Makefile.compress.lib |
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@@ -4,7 +4,7 @@ |
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|
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LIB = xcompress |
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|
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-DLL_LIB = |
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-#$(COMPRESS_LDEP) |
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+DLL_LIB = $(COMPRESS_LDEP) |
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+LIBS = $(CMPRS_LIBS) |
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|
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CPPFLAGS = $(ORIG_CPPFLAGS) $(CMPRS_INCLUDE) |
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--- src/serial/Makefile.serial.lib |
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+++ src/serial/Makefile.serial.lib |
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@@ -17,3 +17,5 @@ |
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objostrjson serializable serialobject pathhook |
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LIB = xser |
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+ |
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+DLL_LIB = xutil xncbi |
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--- src/objtools/data_loaders/genbank/Makefile.ncbi_xreader.lib |
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+++ src/objtools/data_loaders/genbank/Makefile.ncbi_xreader.lib |
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@@ -12,4 +12,4 @@ |
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LIB_OR_DLL = both |
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|
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# Dependencies for shared library |
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-DLL_LIB = |
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+DLL_LIB = xcompress |
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--- src/objtools/readers/Makefile.xobjread.lib |
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+++ src/objtools/readers/Makefile.xobjread.lib |
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@@ -8,4 +8,4 @@ |
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wiggle_reader wiggle_data gff3_reader \ |
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ucscid idmap idmapper idmapper_builtin idmapper_user idmapper_site \ |
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idmapper_database |
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-DLL_LIB = creaders |
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+DLL_LIB = creaders seq seqset |
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--- src/objects/seq/Makefile.seq.lib |
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+++ src/objects/seq/Makefile.seq.lib |
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@@ -10,3 +10,5 @@ |
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SRC = $(ASN:%=%__) $(ASN:%=%___) seqport_util \ |
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seq_id_tree seq_id_handle seq_id_mapper \ |
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seq_loc_mapper_base seq_align_mapper_base |
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+ |
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+DLL_LIB = biblio general pub seqcode sequtil xncbi |
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--- src/objects/pub/Makefile.pub.lib |
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+++ src/objects/pub/Makefile.pub.lib |
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@@ -1,2 +1,4 @@ |
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LIB = pub |
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SRC = pub__ pub___ |
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+ |
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+DLL_LIB = medline |
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--- src/objects/general/Makefile.general.lib |
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+++ src/objects/general/Makefile.general.lib |
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@@ -1,2 +1,4 @@ |
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LIB = general |
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SRC = general__ general___ uoconv |
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+ |
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+DLL_LIB = xsoap xser |
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--- src/objects/omssa/Makefile.omssa.lib |
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+++ src/objects/omssa/Makefile.omssa.lib |
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@@ -2,3 +2,5 @@ |
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|
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LIB = omssa |
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SRC = omssa__ omssa___ |
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+ |
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+DLL_LIB = seq |
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--- src/algo/blast/api/Makefile.xblast.lib |
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+++ src/algo/blast/api/Makefile.xblast.lib |
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@@ -73,7 +73,8 @@ |
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LIB = xblast |
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-DLL_LIB = xalgodustmask xobjutil $(OBJMGR_LIBS) |
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+DLL_LIB = xalgodustmask xalgowinmask xobjutil xnetblast xnetblastcli blastdb composition_adjustment \ |
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+ blast tables xalgoblastdbindex_search xalgoblastdbindex $(OBJMGR_LIBS) |
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|
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CFLAGS = $(FAST_CFLAGS) |
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# Strict gcc flags |
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--- src/algo/blast/dbindex/Makefile.xalgoblastdbindex.lib |
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+++ src/algo/blast/dbindex/Makefile.xalgoblastdbindex.lib |
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@@ -12,3 +12,4 @@ |
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LDFLAGS = $(FAST_LDFLAGS) |
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|
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ASN_DEP = seqset |
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+DLL_LIB = xobjread |
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--- src/objects/biblio/Makefile.biblio.lib |
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+++ src/objects/biblio/Makefile.biblio.lib |
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@@ -1,2 +1,4 @@ |
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LIB = biblio |
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SRC = biblio__ biblio___ label_util |
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+ |
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+DLL_LIB = general |
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--- src/objects/medline/Makefile.medline.lib |
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+++ src/objects/medline/Makefile.medline.lib |
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@@ -1,2 +1,4 @@ |
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LIB = medline |
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SRC = medline__ medline___ |
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+ |
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+DLL_LIB = biblio |
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--- src/objects/Makefile.in |
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+++ src/objects/Makefile.in |
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@@ -5,8 +5,8 @@ |
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|
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USR_PROJ = sources |
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-SUB_PROJ = tinyseq omssa general biblio medline pub pubmed \ |
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- featdef seqcode seqset seq genomecoll biotree \ |
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+SUB_PROJ = tinyseq general biblio medline pub pubmed \ |
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+ featdef seqcode seqset seq omssa genomecoll biotree \ |
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id1 id2 gbseq insdseq entrez2 submit medlars mla proj mmdb \ |
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cdd cn3d scoremat ncbimime access objprt docsum taxon1 mim \ |
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entrezgene blast blastdb blastxml pcsubstance pcassay remap \ |
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