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jlec 15/03/28 17:35:00 |
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Added: embassy-cbstools-1.0.0.650_fix-build-system.patch |
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Log: |
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Import latest changes from science overlay, thanks Ted Tanberry for the work; fixes #335603 |
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(Portage version: 2.2.18/cvs/Linux x86_64, signed Manifest commit with key B9D4F231BD1558AB!) |
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Revision Changes Path |
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1.1 sci-biology/embassy-cbstools/files/embassy-cbstools-1.0.0.650_fix-build-system.patch |
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file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/embassy-cbstools/files/embassy-cbstools-1.0.0.650_fix-build-system.patch?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/embassy-cbstools/files/embassy-cbstools-1.0.0.650_fix-build-system.patch?rev=1.1&content-type=text/plain |
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Index: embassy-cbstools-1.0.0.650_fix-build-system.patch |
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=================================================================== |
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--- CBSTOOLS-1.0.0.650/configure.ac |
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+++ CBSTOOLS-1.0.0.650/configure.ac |
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@@ -635,33 +635,6 @@ |
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-dnl PCRE library definitions - see the MAJOR and MINOR values |
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-dnl to see which version's configure.in these lines come from |
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- |
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-dnl Provide the current PCRE version information. Do not use numbers |
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-dnl with leading zeros for the minor version, as they end up in a C |
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-dnl macro, and may be treated as octal constants. Stick to single |
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-dnl digits for minor numbers less than 10. There are unlikely to be |
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-dnl that many releases anyway. |
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- |
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-PCRE_MAJOR="7" |
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-PCRE_MINOR="9" |
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-PCRE_DATE="11-Apr-2009" |
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-PCRE_VERSION="${PCRE_MAJOR}.${PCRE_MINOR}" |
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- |
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-dnl Default values for miscellaneous macros |
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- |
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-POSIX_MALLOC_THRESHOLD="-DPOSIX_MALLOC_THRESHOLD=10" |
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- |
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-dnl Provide versioning information for libtool shared libraries that |
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-dnl are built by default on Unix systems. |
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- |
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-PCRE_LIB_VERSION="0:1:0" |
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-PCRE_POSIXLIB_VERSION="0:0:0" |
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- |
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- |
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- |
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- |
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dnl FIXME: This does no longer seem required with Autoconf 2.67? |
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dnl Intel MacOSX 10.6 puts X11 in a non-standard place |
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dnl AS_IF([test "x${with_x}" != "xno"], |
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@@ -737,21 +710,6 @@ |
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-dnl "Export" these variables for PCRE |
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- |
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-AC_SUBST([HAVE_MEMMOVE]) |
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-AC_SUBST([HAVE_STRERROR]) |
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-AC_SUBST([PCRE_MAJOR]) |
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-AC_SUBST([PCRE_MINOR]) |
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-AC_SUBST([PCRE_DATE]) |
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-AC_SUBST([PCRE_VERSION]) |
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-AC_SUBST([PCRE_LIB_VERSION]) |
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-AC_SUBST([PCRE_POSIXLIB_VERSION]) |
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-AC_SUBST([POSIX_MALLOC_THRESHOLD]) |
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- |
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- |
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- |
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- |
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dnl Test if --enable-localforce given |
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locallink="no" |
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embprefix="/usr/local" |
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@@ -874,6 +832,11 @@ |
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AM_CONDITIONAL([ESYSTEMLIBS], [test "x${enable_systemlibs}" = "xyes"]) |
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+AS_IF([test "x${enable_systemlibs}" = "xyes"], |
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+[ |
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+dnl using system libraries |
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+ PKG_CHECK_MODULES([PLPLOT], [plplotd]) |
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+]) |
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# Enable the purify tool: --enable-purify, sets CC and LIBTOOL |
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--- CBSTOOLS-1.0.0.650/src/Makefile.am |
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+++ CBSTOOLS-1.0.0.650/src/Makefile.am |
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@@ -19,9 +19,7 @@ |
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-I../../../ajax/ensembl -I../../../ajax/ajaxdb \ |
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-I../../../ajax/acd -I../../../plplot |
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else |
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-AM_CPPFLAGS = -I${embprefix}/include -I${embprefix}/include/eplplot \ |
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- $(NLINCLUDES) \ |
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- -I${embprefix}/include/epcre |
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+AM_CPPFLAGS = -I${embprefix}/include $(NLINCLUDES) $(PLPLOT_CFLAGS) |
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endif |
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if ISSHARED |
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@@ -65,5 +63,5 @@ |
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$(XLIB) |
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else |
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LDADD = -L${embprefix}/lib -lnucleus -lacd -lajaxdb -lensembl -lajaxg \ |
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- -lajax -lepcre $(NLADD) -leplplot $(XLIB) |
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+ -lajax $(NLADD) $(XLIB) |
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endif |
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--- CBSTOOLS-1.0.0.650/emboss_acd/Makefile.am |
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+++ CBSTOOLS-1.0.0.650/emboss_acd/Makefile.am |
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@@ -1,3 +1,3 @@ |
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-pkgdata_DATA = *.acd |
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+pkgdata_DATA = $(srcdir)/*.acd |
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pkgdatadir=$(prefix)/share/EMBOSS/acd |