From 4f2d7949f03e1c198bc888f2d05f421d35c57e21 Mon Sep 17 00:00:00 2001 From: V3n3RiX Date: Mon, 9 Oct 2017 18:53:29 +0100 Subject: reinit the tree, so we can have metadata --- sci-biology/embassy-topo/Manifest | 6 ++ .../embassy-topo/embassy-topo-2.0.660.ebuild | 15 +++ .../embassy-topo-2.0.650_fix-build-system.patch | 110 +++++++++++++++++++++ sci-biology/embassy-topo/metadata.xml | 11 +++ 4 files changed, 142 insertions(+) create mode 100644 sci-biology/embassy-topo/Manifest create mode 100644 sci-biology/embassy-topo/embassy-topo-2.0.660.ebuild create mode 100644 sci-biology/embassy-topo/files/embassy-topo-2.0.650_fix-build-system.patch create mode 100644 sci-biology/embassy-topo/metadata.xml (limited to 'sci-biology/embassy-topo') diff --git a/sci-biology/embassy-topo/Manifest b/sci-biology/embassy-topo/Manifest new file mode 100644 index 000000000000..a1f17bf5ac50 --- /dev/null +++ b/sci-biology/embassy-topo/Manifest @@ -0,0 +1,6 @@ +AUX embassy-topo-2.0.650_fix-build-system.patch 3167 SHA256 d78bcacee455ab12fdb482fa760eb89716da3bac9dbf5ace0f9bba37f2585dbf SHA512 bacff621e9d80d39a4e415736e1524cf69dd86b0253f65fb52ad2dda200cafe8e14af296897c3f695bbe360f2a56862a40dec6b8b0d0e597310f065e191ae770 WHIRLPOOL 09ffc786288a0b428f349cf74973729a9dea8d8ed2078897538b97b59ef41cd48053e0763c6665310a770c6410b28726fe9c09b0ada9543d6fd8054b1e99b24f +DIST embassy-topo-2.0.660.tar.gz 443510 SHA256 a8b8b7c1e04be44b5d6982614a9af44b84d0282bb917ed29e23a0a710241ad6f SHA512 8ef157a61ac47680734bed3d07cfe2bcd86730998453daa704b74aad667944ad6b0cc6f7fce36be4566cb19a626f1648d5f6793ce227cf57939fcfd0d10690a8 WHIRLPOOL fbe0edadeafe14b4b24be6fd65ed51dc9572f89e12e6f038017e9dd208a867138219350ccde6ca3eeab94ccedf34e5ec672a65cbf30c3819387407e778caeb55 +EBUILD embassy-topo-2.0.660.ebuild 342 SHA256 07b735f534f885f651c75d4135d45d15417fcb97340ff25cf4ba4e03612b7595 SHA512 c2a0822f7d20ae5c2bb78aa2f3705517fa7371b154a16395d7b13b5835980a11dce9364cb6d0a90f47a39cc729692b4567ceb5085022b3c0ed41535a3a8ab067 WHIRLPOOL ef6c670b13175f0f99d48aa7b978757c7ff1bf6e2984909f6ba8a48de5f4c2d79145c2dfecaf6e3a6f90dda93fbb7942ac38f6db69707e69bc943e8b0822c28f +MISC ChangeLog 3671 SHA256 7e5217f1daaad28f1c3c4137c619bbf5075360217fe9ad443a32c7a61e8e94fc SHA512 7399a29b68d4b9d974c463aed165882eb8ea32c48ae8297dc2856cea08d032db73579aec4d243f31032df947cd560cc00b6d7c17a3596b9edccca0f693d4f45c WHIRLPOOL d4c5cf7abeab2f3e68ef0c12e8eb48e2a76a653f07481fd9aea955a159c68eaa09dd86108b9181c3965eaf504c4fea191296a5142727926d864c61d718d66db7 +MISC ChangeLog-2015 5212 SHA256 9bf176f777b2a7325026c20377fe46465c1f29f96a1af3e78ac3721a511bb30f SHA512 c7c527494cba100183d37b40b97913f3b4d401de0d990ccc1bda92288deb994e25f8daac07ea14b18287435a3409ec81a489bdf2be333d21ace00db07f1835f7 WHIRLPOOL 05b8f8040075da4b7e2277547af92019562d3a744b7370c2e9dc98df7d43d36a3972e88ef96295831c95f23d0b2c4027ba3f6ceda25304699c4be490c2c06f3f +MISC metadata.xml 347 SHA256 52f98c83739517e0c387d292abce08592cc91f49f0ca6961830adce541004cb2 SHA512 d6ddcfb5e3234d23f3c500a7234b0bc77ecdb0cf52f35f041ffdd444b8b3fefe7d0b3e89e5f7fb86da375647b7436ab1766b5bff186206e189045e38ade2056e WHIRLPOOL 1e331531e26a30418ce16d219ba8f2869d88279d42b5a2808e371276f18a56bcdd6b044f01f2a2c8489f1976293095f3a4c14e6c6672e7e7534438e4993b144b diff --git a/sci-biology/embassy-topo/embassy-topo-2.0.660.ebuild b/sci-biology/embassy-topo/embassy-topo-2.0.660.ebuild new file mode 100644 index 000000000000..009adfe73914 --- /dev/null +++ b/sci-biology/embassy-topo/embassy-topo-2.0.660.ebuild @@ -0,0 +1,15 @@ +# Copyright 1999-2017 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=6 + +EBO_DESCRIPTION="Transmembrane protein display" + +EBO_EAUTORECONF=1 + +inherit emboss-r2 + +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" + +S="${WORKDIR}/TOPO-2.0.650" +PATCHES=( "${FILESDIR}"/${PN}-2.0.650_fix-build-system.patch ) diff --git a/sci-biology/embassy-topo/files/embassy-topo-2.0.650_fix-build-system.patch b/sci-biology/embassy-topo/files/embassy-topo-2.0.650_fix-build-system.patch new file mode 100644 index 000000000000..3c37879de8c8 --- /dev/null +++ b/sci-biology/embassy-topo/files/embassy-topo-2.0.650_fix-build-system.patch @@ -0,0 +1,110 @@ + configure.ac | 49 +++++++------------------------------------------ + emboss_acd/Makefile.am | 2 +- + src/Makefile.am | 6 ++---- + 3 files changed, 10 insertions(+), 47 deletions(-) + +diff --git a/configure.ac b/configure.ac +index 8eeb8ca..4fd28ac 100644 +--- a/configure.ac ++++ b/configure.ac +@@ -635,33 +635,6 @@ AS_CASE([${host_os}], + + + +-dnl PCRE library definitions - see the MAJOR and MINOR values +-dnl to see which version's configure.in these lines come from +- +-dnl Provide the current PCRE version information. Do not use numbers +-dnl with leading zeros for the minor version, as they end up in a C +-dnl macro, and may be treated as octal constants. Stick to single +-dnl digits for minor numbers less than 10. There are unlikely to be +-dnl that many releases anyway. +- +-PCRE_MAJOR="7" +-PCRE_MINOR="9" +-PCRE_DATE="11-Apr-2009" +-PCRE_VERSION="${PCRE_MAJOR}.${PCRE_MINOR}" +- +-dnl Default values for miscellaneous macros +- +-POSIX_MALLOC_THRESHOLD="-DPOSIX_MALLOC_THRESHOLD=10" +- +-dnl Provide versioning information for libtool shared libraries that +-dnl are built by default on Unix systems. +- +-PCRE_LIB_VERSION="0:1:0" +-PCRE_POSIXLIB_VERSION="0:0:0" +- +- +- +- + 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${with_x}" != "xno"], +@@ -737,21 +710,6 @@ AX_LIB_POSTGRESQL + + + +-dnl "Export" these variables for PCRE +- +-AC_SUBST([HAVE_MEMMOVE]) +-AC_SUBST([HAVE_STRERROR]) +-AC_SUBST([PCRE_MAJOR]) +-AC_SUBST([PCRE_MINOR]) +-AC_SUBST([PCRE_DATE]) +-AC_SUBST([PCRE_VERSION]) +-AC_SUBST([PCRE_LIB_VERSION]) +-AC_SUBST([PCRE_POSIXLIB_VERSION]) +-AC_SUBST([POSIX_MALLOC_THRESHOLD]) +- +- +- +- + dnl Test if --enable-localforce given + locallink="no" + embprefix="/usr/local" +@@ -874,6 +832,13 @@ AC_ARG_ENABLE([systemlibs], + AM_CONDITIONAL([ESYSTEMLIBS], [test "x${enable_systemlibs}" = "xyes"]) + + ++AS_IF([test "x${enable_systemlibs}" = "xyes"], ++[ ++dnl using system libraries ++ PKG_CHECK_MODULES([PLPLOT], [plplotd], ++ [],[PKG_CHECK_MODULES([PLPLOT], [plplot])] ++ ) ++]) + + + # Enable the purify tool: --enable-purify, sets CC and LIBTOOL +diff --git a/emboss_acd/Makefile.am b/emboss_acd/Makefile.am +index e1c1878..e253c95 100644 +--- a/emboss_acd/Makefile.am ++++ b/emboss_acd/Makefile.am +@@ -1,3 +1,3 @@ + +-pkgdata_DATA = *.acd ++pkgdata_DATA = $(srcdir)/*.acd + pkgdatadir=$(prefix)/share/EMBOSS/acd +diff --git a/src/Makefile.am b/src/Makefile.am +index 1cdb0b1..0e86a4b 100644 +--- a/src/Makefile.am ++++ b/src/Makefile.am +@@ -17,9 +17,7 @@ AM_CPPFLAGS = -I../../../nucleus -I../../../ajax/pcre \ + -I../../../ajax/ensembl -I../../../ajax/ajaxdb \ + -I../../../ajax/acd -I../../../plplot + else +-AM_CPPFLAGS = -I${embprefix}/include -I${embprefix}/include/eplplot \ +- $(NLINCLUDES) \ +- -I${embprefix}/include/epcre ++AM_CPPFLAGS = -I${embprefix}/include $(NLINCLUDES) $(PLPLOT_CFLAGS) + endif + + if ISSHARED +@@ -60,5 +58,5 @@ LDADD = ../../../nucleus/libnucleus.la ../../../ajax/acd/libacd.la \ + $(XLIB) + else + LDADD = -L${embprefix}/lib -lnucleus -lacd -lajaxdb -lensembl -lajaxg \ +- -lajax -lepcre $(NLADD) -leplplot $(XLIB) ++ -lajax $(NLADD) $(XLIB) + endif diff --git a/sci-biology/embassy-topo/metadata.xml b/sci-biology/embassy-topo/metadata.xml new file mode 100644 index 000000000000..d1b9a7602ec2 --- /dev/null +++ b/sci-biology/embassy-topo/metadata.xml @@ -0,0 +1,11 @@ + + + + + sci-biology@gentoo.org + Gentoo Biology Project + + + emboss + + -- cgit v1.2.3