gentoo-overlay/sci-biology/ncbi-tools++/files/ncbi-tools++-2009.05.15-asneeded.patch

--- src/build-system/Makefile.mk.in
+++ src/build-system/Makefile.mk.in
@@ -547,7 +547,7 @@
 #################################
 # Useful sets of object libraries
 # Interdependent sequence libraries + seqcode.  Does not include seqset.
-COMPRESS_LDEP = $(CMPRS_LIB)
+COMPRESS_LDEP = $(CMPRS_LIB) xutil xncbi
 COMPRESS_LIBS = xcompress $(COMPRESS_LDEP)
 
 GENBANK_LDEP = \
--- src/util/compress/Makefile.compress.lib
+++ src/util/compress/Makefile.compress.lib
@@ -4,7 +4,7 @@
 
 LIB = xcompress
 
-DLL_LIB = 
-#$(COMPRESS_LDEP)
+DLL_LIB = $(COMPRESS_LDEP)
+LIBS = $(CMPRS_LIBS)

 CPPFLAGS = $(ORIG_CPPFLAGS) $(CMPRS_INCLUDE)
--- src/serial/Makefile.serial.lib
+++ src/serial/Makefile.serial.lib
@@ -17,3 +17,5 @@
 	objostrjson serializable serialobject pathhook
 
 LIB    = xser
+
+DLL_LIB = xutil xncbi
--- src/objtools/data_loaders/genbank/Makefile.ncbi_xreader.lib
+++ src/objtools/data_loaders/genbank/Makefile.ncbi_xreader.lib
@@ -12,4 +12,4 @@
 LIB_OR_DLL = both
 
 # Dependencies for shared library
-DLL_LIB = 
+DLL_LIB = xcompress
--- src/objtools/readers/Makefile.xobjread.lib
+++ src/objtools/readers/Makefile.xobjread.lib
@@ -8,4 +8,4 @@
       wiggle_reader wiggle_data gff3_reader \
       ucscid idmap idmapper idmapper_builtin idmapper_user idmapper_site \
       idmapper_database
-DLL_LIB = creaders
+DLL_LIB = creaders seq seqset
--- src/objects/seq/Makefile.seq.lib
+++ src/objects/seq/Makefile.seq.lib
@@ -10,3 +10,5 @@
 SRC = $(ASN:%=%__) $(ASN:%=%___) seqport_util \
       seq_id_tree seq_id_handle seq_id_mapper \
       seq_loc_mapper_base seq_align_mapper_base
+
+DLL_LIB = biblio general pub seqcode sequtil xncbi
--- src/objects/pub/Makefile.pub.lib
+++ src/objects/pub/Makefile.pub.lib
@@ -1,2 +1,4 @@
 LIB = pub
 SRC = pub__ pub___
+
+DLL_LIB = medline
--- src/objects/general/Makefile.general.lib
+++ src/objects/general/Makefile.general.lib
@@ -1,2 +1,4 @@
 LIB = general
 SRC = general__ general___ uoconv
+
+DLL_LIB = xsoap xser
--- src/objects/omssa/Makefile.omssa.lib
+++ src/objects/omssa/Makefile.omssa.lib
@@ -2,3 +2,5 @@
 
 LIB = omssa
 SRC = omssa__ omssa___
+
+DLL_LIB = seq
--- src/algo/blast/api/Makefile.xblast.lib
+++ src/algo/blast/api/Makefile.xblast.lib
@@ -73,7 +73,8 @@
 
 LIB = xblast
 
-DLL_LIB = xalgodustmask xobjutil $(OBJMGR_LIBS)
+DLL_LIB = xalgodustmask xalgowinmask xobjutil xnetblast xnetblastcli blastdb composition_adjustment \
+   blast tables xalgoblastdbindex_search xalgoblastdbindex $(OBJMGR_LIBS)
 
 CFLAGS   = $(FAST_CFLAGS)
 # Strict gcc flags
--- src/algo/blast/dbindex/Makefile.xalgoblastdbindex.lib
+++ src/algo/blast/dbindex/Makefile.xalgoblastdbindex.lib
@@ -12,3 +12,4 @@
 LDFLAGS  = $(FAST_LDFLAGS)
 
 ASN_DEP = seqset
+DLL_LIB = xobjread
--- src/objects/biblio/Makefile.biblio.lib
+++ src/objects/biblio/Makefile.biblio.lib
@@ -1,2 +1,4 @@
 LIB = biblio
 SRC = biblio__ biblio___ label_util
+
+DLL_LIB = general
--- src/objects/medline/Makefile.medline.lib
+++ src/objects/medline/Makefile.medline.lib
@@ -1,2 +1,4 @@
 LIB = medline
 SRC = medline__ medline___
+
+DLL_LIB = biblio
--- src/objects/Makefile.in
+++ src/objects/Makefile.in
@@ -5,8 +5,8 @@
 
 USR_PROJ = sources
 
-SUB_PROJ = tinyseq omssa general biblio medline pub pubmed \
-           featdef seqcode seqset seq genomecoll biotree \
+SUB_PROJ = tinyseq general biblio medline pub pubmed \
+           featdef seqcode seqset seq omssa genomecoll biotree \
            id1 id2 gbseq insdseq entrez2 submit medlars mla proj mmdb \
            cdd cn3d scoremat ncbimime access objprt docsum taxon1 mim \
            entrezgene blast blastdb blastxml pcsubstance pcassay remap \