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-domsearch/Manifest | 6 ++ .../embassy-domsearch-0.1.660.ebuild | 15 ++++ ...mbassy-domsearch-0.1.650_fix-build-system.patch | 100 +++++++++++++++++++++ sci-biology/embassy-domsearch/metadata.xml | 11 +++ 4 files changed, 132 insertions(+) create mode 100644 sci-biology/embassy-domsearch/Manifest create mode 100644 sci-biology/embassy-domsearch/embassy-domsearch-0.1.660.ebuild create mode 100644 sci-biology/embassy-domsearch/files/embassy-domsearch-0.1.650_fix-build-system.patch create mode 100644 sci-biology/embassy-domsearch/metadata.xml (limited to 'sci-biology/embassy-domsearch') diff --git a/sci-biology/embassy-domsearch/Manifest b/sci-biology/embassy-domsearch/Manifest new file mode 100644 index 000000000000..b57c08dbe610 --- /dev/null +++ b/sci-biology/embassy-domsearch/Manifest @@ -0,0 +1,6 @@ +AUX embassy-domsearch-0.1.650_fix-build-system.patch 2890 SHA256 8b6901b6126ec5642c08ff114b2401d2b498b6912e2c58e0767156d775d0a166 SHA512 3f012a5646751b43ec66d006df04cbe8fa880d0acd62723962dbb0e1817c5f5db2bd4879c25cf932114aa43291bc70816afef6664088532222e11135f0ab5603 WHIRLPOOL 11cb26d3dcab609c43d404afaeca56f44439fe84bf4d25b05bdd98c4838e11d19753f2f3390af93c7d9b9141226e02804190cd8a8f0061dd7d67bd0e0d989644 +DIST embassy-domsearch-0.1.660.tar.gz 504183 SHA256 43c1d99723f42d0f79c4e9d11abaff084bed8262ec958f237a51465cd7afa168 SHA512 a242100dc7b4b1f4a838dbf65dffb0475b6b890c7d68efae6a74beb3d4784d031f92365a50a41c0d7ea7d1b4be5e65a298626a798970c74df0d5f85427a51589 WHIRLPOOL 02afa5cdf4d82b127317537c088b91592f6c4624769b7b13f030fd59590b533fb8ec62189b165bbf885d967069883f5e08f562e7187294468700ce9571a47111 +EBUILD embassy-domsearch-0.1.660.ebuild 341 SHA256 3e25fee23debf35e06c6e2c1a1f1d31f1913d7a2782165fb86d71f60da8111d1 SHA512 b7719faa5c0b7fd20379351f41930926cdea99e5c1b26e23aec3f7aceae12e1db885997782b2c4ca89e0bc5d92e17261e990d644ba04da36d9c219c0e5732afa WHIRLPOOL adc45d6d31b88003d7395fd1dd570b1f7ae90dd68015bb83d02431f8a929c54e51cc8681febff2b3b387ed20f26c3b7283627f1b0bcdf4ec3cfd06a903419103 +MISC ChangeLog 3722 SHA256 a46008601cf02935daa424c5201e812f1e86c00db5ff3325ff9853a7c16a10b7 SHA512 4116820109aa24ceca048ebe8875aff64095991a881d8d9026b86eb84736df6bc9b7e4d3015b32d6da2a5ea1baed072ff78a515246efc176e2f52dcbd71e72f7 WHIRLPOOL 22dbd4538aa426a57006b95a340f00e7a2e2b101d340e2bd3c4ab04f2ddf91e61e8139a7c243f7c63c4343a1a2fdb82e0e1fee0c0cacae15a261c86ced661dcd +MISC ChangeLog-2015 3869 SHA256 bd705086afad7fdfa6045c3d7fca59e2b3036b2d65d2a43585e1add5bb13cd58 SHA512 0914a10689fc1d3d6e44cdfe75158e275b56362a700aec1ba2ab7ceaf4e6e212d5881c7fa38ee774da39e5d858d44574ff625c2996b03d6843453703d298184c WHIRLPOOL 03fbac60078932d22105d1c3b113ab5acc1cb916da773efe0cd2fada41b1ef5d686c8208135168e327749a2102a7d9c77a01c21bd1d2360dc1e52185bd51746c +MISC metadata.xml 347 SHA256 52f98c83739517e0c387d292abce08592cc91f49f0ca6961830adce541004cb2 SHA512 d6ddcfb5e3234d23f3c500a7234b0bc77ecdb0cf52f35f041ffdd444b8b3fefe7d0b3e89e5f7fb86da375647b7436ab1766b5bff186206e189045e38ade2056e WHIRLPOOL 1e331531e26a30418ce16d219ba8f2869d88279d42b5a2808e371276f18a56bcdd6b044f01f2a2c8489f1976293095f3a4c14e6c6672e7e7534438e4993b144b diff --git a/sci-biology/embassy-domsearch/embassy-domsearch-0.1.660.ebuild b/sci-biology/embassy-domsearch/embassy-domsearch-0.1.660.ebuild new file mode 100644 index 000000000000..a47adcfb8457 --- /dev/null +++ b/sci-biology/embassy-domsearch/embassy-domsearch-0.1.660.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="Protein domain search add-on package" + +EBO_EAUTORECONF=1 + +inherit emboss-r2 + +KEYWORDS="~amd64 ~x86 ~x86-linux" + +S="${WORKDIR}/DOMSEARCH-0.1.650" +PATCHES=( "${FILESDIR}"/${PN}-0.1.650_fix-build-system.patch ) diff --git a/sci-biology/embassy-domsearch/files/embassy-domsearch-0.1.650_fix-build-system.patch b/sci-biology/embassy-domsearch/files/embassy-domsearch-0.1.650_fix-build-system.patch new file mode 100644 index 000000000000..d24857c8386d --- /dev/null +++ b/sci-biology/embassy-domsearch/files/embassy-domsearch-0.1.650_fix-build-system.patch @@ -0,0 +1,100 @@ + configure.ac | 49 +++++++------------------------------------------ + src/Makefile.am | 6 ++---- + 2 files changed, 9 insertions(+), 46 deletions(-) + +diff --git a/configure.ac b/configure.ac +index f0f97fa..d419d7d 100644 +--- a/configure.ac ++++ b/configure.ac +@@ -635,33 +635,6 @@ AS_CASE([${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${enable_systemlibs}" = "xyes"], ++[ ++dnl using system libraries ++ PKG_CHECK_MODULES([PLPLOT], [plplotd], ++ [],[PKG_CHECK_MODULES([PLPLOT], [plplot])] ++ ) ++]) + + + # Enable the purify tool: --enable-purify, sets CC and LIBTOOL +diff --git a/src/Makefile.am b/src/Makefile.am +index 9829ebd..433a5c5 100644 +--- a/src/Makefile.am ++++ b/src/Makefile.am +@@ -17,9 +17,7 @@ AM_CPPFLAGS = -I../../../nucleus -I../../../ajax/pcre \ + -I../../../ajax/ensembl -I../../../ajax/ajaxdb \ + -I../../../ajax/acd -I../../../plplot + else +-AM_CPPFLAGS = -I${embprefix}/include -I${embprefix}/include/eplplot \ +- $(NLINCLUDES) \ +- -I${embprefix}/include/epcre ++AM_CPPFLAGS = -I${embprefix}/include $(NLINCLUDES) $(PLPLOT_CFLAGS) + endif + + if ISSHARED +@@ -62,5 +60,5 @@ LDADD = ../../../nucleus/libnucleus.la ../../../ajax/acd/libacd.la \ + ../../../plplot/libeplplot.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-domsearch/metadata.xml b/sci-biology/embassy-domsearch/metadata.xml new file mode 100644 index 000000000000..d1b9a7602ec2 --- /dev/null +++ b/sci-biology/embassy-domsearch/metadata.xml @@ -0,0 +1,11 @@ + + + + + sci-biology@gentoo.org + Gentoo Biology Project + + + emboss + + -- cgit v1.2.3