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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2017-03-27 02:44:01 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2017-03-27 02:44:01 +0200 |
| commit | 339162f1f266f025acebcffc1225961c3a50a24b (patch) | |
| tree | b573086ed9ed6ef4c683b5d965aad4a4b6e00dc9 /sci-biology/ncbi-tools++ | |
| parent | sci-biology/ncbi-tools++: fix table2asn linking (diff) | |
| download | sci-339162f1f266f025acebcffc1225961c3a50a24b.tar.gz sci-339162f1f266f025acebcffc1225961c3a50a24b.tar.bz2 sci-339162f1f266f025acebcffc1225961c3a50a24b.zip | |
sci-biology/ncbi-tools++: and more
Package-Manager: Portage-2.3.5, Repoman-2.3.1
Diffstat (limited to 'sci-biology/ncbi-tools++')
3 files changed, 32 insertions, 0 deletions
diff --git a/sci-biology/ncbi-tools++/files/ncbi-tools++-18.0.0-fix-app-tls-linking.patch b/sci-biology/ncbi-tools++/files/ncbi-tools++-18.0.0-fix-app-tls-linking.patch new file mode 100644 index 000000000..541dc2514 --- /dev/null +++ b/sci-biology/ncbi-tools++/files/ncbi-tools++-18.0.0-fix-app-tls-linking.patch @@ -0,0 +1,11 @@ +--- ncbi_cxx--18_0_0/src/app/tls/Makefile.tls.app.ori 2017-03-27 02:33:36.312151540 +0200 ++++ ncbi_cxx--18_0_0/src/app/tls/Makefile.tls.app 2017-03-27 02:34:19.372151184 +0200 +@@ -10,7 +10,7 @@ + SRC = tls + + LIB = $(OBJEDIT_LIBS) $(XFORMAT_LIBS) xalnmgr xobjutil \ +- xregexp $(PCRE_LIB) $(OBJMGR_LIBS) ++ xregexp $(PCRE_LIB) tables $(OBJMGR_LIBS) + + LIBS = $(PCRE_LIBS) \ + $(NETWORK_LIBS) $(CMPRS_LIBS) $(ORIG_LIBS) diff --git a/sci-biology/ncbi-tools++/files/ncbi-tools++-18.0.0-fix-app-vecscreen-linking.patch b/sci-biology/ncbi-tools++/files/ncbi-tools++-18.0.0-fix-app-vecscreen-linking.patch new file mode 100644 index 000000000..9f33392d3 --- /dev/null +++ b/sci-biology/ncbi-tools++/files/ncbi-tools++-18.0.0-fix-app-vecscreen-linking.patch @@ -0,0 +1,19 @@ +--- ncbi_cxx--18_0_0/src/app/vecscreen/Makefile.vecscreen.app.ori 2017-03-27 02:34:44.242150979 +0200 ++++ ncbi_cxx--18_0_0/src/app/vecscreen/Makefile.vecscreen.app 2017-03-27 02:36:22.752150165 +0200 +@@ -4,7 +4,7 @@ + + APP = vecscreen + SRC = vecscreen_app +-LIB_ = $(BLAST_INPUT_LIBS) $(BLAST_LIBS) $(OBJMGR_LIBS) ++LIB_ = $(BLAST_INPUT_LIBS) $(BLAST_LIBS) xregexp $(PCRE_LIB) $(OBJMGR_LIBS) + LIB = $(LIB_:%=%$(STATIC)) + # FIXME: do we need blast_app_util + #LIB = blast_app_util $(LIB_:%=%$(STATIC)) +@@ -15,6 +15,6 @@ + LDFLAGS = $(FAST_LDFLAGS:ppc=i386) + + CPPFLAGS = $(ORIG_CPPFLAGS) +-LIBS = $(CMPRS_LIBS) $(DL_LIBS) $(NETWORK_LIBS) $(ORIG_LIBS) ++LIBS = $(CMPRS_LIBS) $(DL_LIBS) $(NETWORK_LIBS) $(PCRE_LIBS) $(ORIG_LIBS) + + REQUIRES = objects -Cygwin diff --git a/sci-biology/ncbi-tools++/ncbi-tools++-18.0.0.ebuild b/sci-biology/ncbi-tools++/ncbi-tools++-18.0.0.ebuild index 40db6cfa3..5d0547875 100644 --- a/sci-biology/ncbi-tools++/ncbi-tools++-18.0.0.ebuild +++ b/sci-biology/ncbi-tools++/ncbi-tools++-18.0.0.ebuild @@ -130,6 +130,8 @@ src_prepare() { "${FILESDIR}"/${P}-fix-app-rmblastn-linking.patch "${FILESDIR}"/${P}-remove-old-symlinks.patch "${FILESDIR}"/${P}-fix-app-table2asn-linking.patch + "${FILESDIR}"/${P}-fix-app-tls-linking.patch + "${FILESDIR}"/${P}-fix-app-vecscreen-linking.patch ) #ncbi-tools++-18.0.0-fix-undefined-lxncbi.patch epatch ${PATCHES[@]} |