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| author |   David Seifert <soap@gentoo.org> | 2021-03-13 13:05:01 +0100 |
|---|---|---|
| committer | David Seifert <soap@gentoo.org> | 2021-03-13 13:05:01 +0100 |
| commit | 711ecbd8f3b6e2adaeee1cea2134b7d817f727a0 (patch) | |
| tree | 7f98fc8ffc9ca3d57d5e60314c1d6a351dd84698 /sci-biology | |
| parent | sci-biology/embassy-mse: Fix building against clang/LLD (diff) | |
| download | gentoo-711ecbd8f3b6e2adaeee1cea2134b7d817f727a0.tar.gz gentoo-711ecbd8f3b6e2adaeee1cea2134b7d817f727a0.tar.bz2 gentoo-711ecbd8f3b6e2adaeee1cea2134b7d817f727a0.zip | |
sci-biology/embassy-vienna: Fix building against clang/LLD
Closes: https://bugs.gentoo.org/731852
Package-Manager: Portage-3.0.17, Repoman-3.0.2
Signed-off-by: David Seifert <soap@gentoo.org>
Diffstat (limited to 'sci-biology')
| -rw-r--r-- | sci-biology/embassy-vienna/files/embassy-vienna-1.7.2.650_fix-build-system.patch | 42 |
1 files changed, 27 insertions, 15 deletions
diff --git a/sci-biology/embassy-vienna/files/embassy-vienna-1.7.2.650_fix-build-system.patch b/sci-biology/embassy-vienna/files/embassy-vienna-1.7.2.650_fix-build-system.patch index 5ce365ed5497..8bd816b0e672 100644 --- a/sci-biology/embassy-vienna/files/embassy-vienna-1.7.2.650_fix-build-system.patch +++ b/sci-biology/embassy-vienna/files/embassy-vienna-1.7.2.650_fix-build-system.patch @@ -1,12 +1,6 @@ - configure.ac | 49 +++++++------------------------------------------ - src/Makefile.am | 7 +++---- - 2 files changed, 10 insertions(+), 46 deletions(-) - -diff --git a/configure.ac b/configure.ac -index f5a4ecf..bbe0743 100644 --- a/configure.ac +++ b/configure.ac -@@ -649,33 +649,6 @@ AS_CASE([${host_os}], +@@ -649,33 +649,6 @@ @@ -40,7 +34,7 @@ index f5a4ecf..bbe0743 100644 dnl FIXME: This does no longer seem required with Autoconf 2.67? dnl Intel MacOSX 10.6 puts X11 in a non-standard place dnl AS_IF([test "x${with_x}" != "xno"], -@@ -751,21 +724,6 @@ AX_LIB_POSTGRESQL +@@ -751,21 +724,6 @@ @@ -62,7 +56,7 @@ index f5a4ecf..bbe0743 100644 dnl Test if --enable-localforce given locallink="no" embprefix="/usr/local" -@@ -888,6 +846,13 @@ AC_ARG_ENABLE([systemlibs], +@@ -888,6 +846,13 @@ AM_CONDITIONAL([ESYSTEMLIBS], [test "x${enable_systemlibs}" = "xyes"]) @@ -76,11 +70,18 @@ index f5a4ecf..bbe0743 100644 # Enable the purify tool: --enable-purify, sets CC and LIBTOOL -diff --git a/src/Makefile.am b/src/Makefile.am -index 1f5b756..e178914 100644 --- a/src/Makefile.am +++ b/src/Makefile.am -@@ -32,9 +32,7 @@ AM_CPPFLAGS = -I../H -I../../../nucleus -I../../../ajax/pcre \ +@@ -10,7 +10,7 @@ + -lnucleus -lacd -lajaxdb -lensembl -lajaxg -lajax -leplplot -leexpat \ + -lezlib -lepcre + else +-CYGWIN_LDVIENNA = -L${embprefix}/lib -lnucleus -lacd -lajaxdb -lensembl \ ++CYGWIN_LDVIENNA = -lnucleus -lacd -lajaxdb -lensembl \ + -lajaxg -lajax -leplplot -leexpat -lezlib -lepcre + endif + endif +@@ -32,9 +32,7 @@ -I../../../ajax/ensembl -I../../../ajax/ajaxdb \ -I../../../ajax/acd -I../../../plplot else @@ -91,7 +92,16 @@ index 1f5b756..e178914 100644 endif if ISSHARED -@@ -87,6 +85,7 @@ LINKFLAGS = $(VERS_INF) +@@ -49,7 +47,7 @@ + -lnucleus -lacd -lajaxdb -lensembl -lajaxg -lajax -leexpat -lepcre \ + $(NLAIXLIBS) -leplplot + else +-AIX_CFLAGS = -Wl,-bdynamic -Wl,-brtl -L${embprefix}/lib -lnucleus -lacd \ ++AIX_CFLAGS = -Wl,-bdynamic -Wl,-brtl -lnucleus -lacd \ + -lajaxdb -lensembl -lajaxg -lajax -leexpat -lepcre $(NLAIXLIBS) -leplplot + endif + endif +@@ -87,6 +85,7 @@ endif liboviennarna_la_LDFLAGS = $(LINKFLAGS) @@ -99,10 +109,12 @@ index 1f5b756..e178914 100644 ovrnaalifold_SOURCES = vrnaalifold.c ovrnaalifoldpf_SOURCES = vrnaalifoldpf.c -@@ -119,5 +118,5 @@ LDADD = liboviennarna.la \ +@@ -118,6 +117,6 @@ + ../../../plplot/libeplplot.la \ $(XLIB) else - LDADD = liboviennarna.la -L${embprefix}/lib -lnucleus -lacd -lajaxdb \ +-LDADD = liboviennarna.la -L${embprefix}/lib -lnucleus -lacd -lajaxdb \ - -lensembl -lajaxg -lajax -lepcre $(NLADD) -leplplot $(XLIB) ++LDADD = liboviennarna.la -lnucleus -lacd -lajaxdb \ + -lensembl -lajaxg -lajax $(NLADD) $(XLIB) endif |