commit: 868fbe5eeaa38a05f1ae2775a286b8d2ae651572
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Mon Mar 25 12:15:59 2019 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Mar 25 12:15:59 2019 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=868fbe5e
sci-biology/ncbi-blast+: EAPI7 bump, remove unused variable
Package-Manager: Portage-2.3.62, Repoman-2.3.12
Signed-off-by: Martin Mokrejs <mmokrejs <AT> fold.natur.cuni.cz>
sci-biology/ncbi-blast+/ncbi-blast+-2.2.30.ebuild | 8 ++++----
sci-biology/ncbi-blast+/ncbi-blast+-2.2.31.ebuild | 8 ++++----
sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild | 6 +++---
.../{ncbi-blast+-2.6.0.ebuild => ncbi-blast+-2.8.1.ebuild} | 9 +++++----
4 files changed, 16 insertions(+), 15 deletions(-)
diff --git a/sci-biology/ncbi-blast+/ncbi-blast+-2.2.30.ebuild
b/sci-biology/ncbi-blast+/ncbi-blast+-2.2.30.ebuild
index dd6f3444f..d6c529b57 100644
--- a/sci-biology/ncbi-blast+/ncbi-blast+-2.2.30.ebuild
+++ b/sci-biology/ncbi-blast+/ncbi-blast+-2.2.30.ebuild
@@ -1,13 +1,12 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=5
+EAPI=7
PYTHON_COMPAT=( python2_7 )
inherit eutils flag-o-matic multilib python-single-r1 toolchain-funcs
-MY_PV="2.2.30"
MY_P="ncbi-blast-${PV}+-src"
# workdir/ncbi-blast-2.2.30+-src
#
ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-src.tar.gz
@@ -134,6 +133,7 @@ src_prepare() {
# Temporarily disabling eautoconf because we patch configure via
${P}-support-autoconf-2.60.patch
# eautoconf # keep it disabled until we can ensure 2.59 is installed
# beware 12.0.0. and previous required autoconf-2.59, a patch for
12.0.0 brings autoconf-2.60 support
+ default
}
# possibly place modified contents of ${W}/src/build-system/config.site.ncbi
and {W}/src/build-system/config.site.ex into ${W}/src/build-system/config.site
@@ -279,7 +279,7 @@ src_configure() {
--prefix="${EPREFIX}/usr" \
--libdir=/usr/lib64 \
--with-flat-makefile \
- ${myconf[@]} || die
+ ${myconf[@]} || die "gcc 7 or newer were not used by upstream
hence unsupported"
#--without-debug \
# --with-bin-release \
# --with-bincopy \
diff --git a/sci-biology/ncbi-blast+/ncbi-blast+-2.2.31.ebuild
b/sci-biology/ncbi-blast+/ncbi-blast+-2.2.31.ebuild
index 4622ac976..40d060bf5 100644
--- a/sci-biology/ncbi-blast+/ncbi-blast+-2.2.31.ebuild
+++ b/sci-biology/ncbi-blast+/ncbi-blast+-2.2.31.ebuild
@@ -1,13 +1,12 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=5
+EAPI=7
PYTHON_COMPAT=( python2_7 )
inherit eutils flag-o-matic multilib python-single-r1 toolchain-funcs
-MY_PV="2.2.30"
MY_P="ncbi-blast-${PV}+-src"
# workdir/ncbi-blast-2.2.30+-src
#
ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-src.tar.gz
@@ -137,6 +136,7 @@ src_prepare() {
# Temporarily disabling eautoconf because we patch configure via
${P}-support-autoconf-2.60.patch
# eautoconf # keep it disabled until we can ensure 2.59 is installed
# beware 12.0.0. and previous required autoconf-2.59, a patch for
12.0.0 brings autoconf-2.60 support
+ default
}
# possibly place modified contents of ${W}/src/build-system/config.site.ncbi
and {W}/src/build-system/config.site.ex into ${W}/src/build-system/config.site
@@ -282,7 +282,7 @@ src_configure() {
--prefix="${EPREFIX}/usr" \
--libdir=/usr/lib64 \
--with-flat-makefile \
- ${myconf[@]} || die
+ ${myconf[@]} || die "gcc 7 or newer were not used by upstream
hence unsupported"
#--without-debug \
# --with-bin-release \
# --with-bincopy \
diff --git a/sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
b/sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
index 6adbefad3..0a826b779 100644
--- a/sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
+++ b/sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
@@ -1,13 +1,12 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=5
+EAPI=7
PYTHON_COMPAT=( python2_7 )
inherit eutils flag-o-matic multilib python-single-r1 toolchain-funcs
-MY_PV="2.3.0"
MY_P="ncbi-blast-${PV}+-src"
# workdir/ncbi-blast-2.2.30+-src
#
ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-src.tar.gz
@@ -138,6 +137,7 @@ src_prepare() {
# Temporarily disabling eautoconf because we patch configure via
${P}-support-autoconf-2.60.patch
# eautoconf # keep it disabled until we can ensure 2.59 is installed
# beware 12.0.0. and previous required autoconf-2.59, a patch for
12.0.0 brings autoconf-2.60 support
+ default
}
# possibly place modified contents of ${W}/src/build-system/config.site.ncbi
and {W}/src/build-system/config.site.ex into ${W}/src/build-system/config.site
diff --git a/sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
b/sci-biology/ncbi-blast+/ncbi-blast+-2.8.1.ebuild
similarity index 99%
copy from sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
copy to sci-biology/ncbi-blast+/ncbi-blast+-2.8.1.ebuild
index 6adbefad3..c91a5d490 100644
--- a/sci-biology/ncbi-blast+/ncbi-blast+-2.6.0.ebuild
+++ b/sci-biology/ncbi-blast+/ncbi-blast+-2.8.1.ebuild
@@ -1,13 +1,12 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=5
+EAPI=7
PYTHON_COMPAT=( python2_7 )
inherit eutils flag-o-matic multilib python-single-r1 toolchain-funcs
-MY_PV="2.3.0"
MY_P="ncbi-blast-${PV}+-src"
# workdir/ncbi-blast-2.2.30+-src
#
ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-src.tar.gz
@@ -67,7 +66,8 @@ DEPEND="
xpm? ( x11-libs/libXpm )
dev-libs/lzo
app-arch/bzip2
- dev-libs/libpcre"
+ dev-libs/libpcre
+ dev-db/lmdb"
# USE flags which should be added somehow: wxWindows wxWidgets SP ORBacus ODBC
OEChem sge
# Intentionally omitted USE flags:
# ftds? ( dev-db/freetds ) # support for outside FreeTDS installations is
currently broken.
@@ -138,6 +138,7 @@ src_prepare() {
# Temporarily disabling eautoconf because we patch configure via
${P}-support-autoconf-2.60.patch
# eautoconf # keep it disabled until we can ensure 2.59 is installed
# beware 12.0.0. and previous required autoconf-2.59, a patch for
12.0.0 brings autoconf-2.60 support
+ default
}
# possibly place modified contents of ${W}/src/build-system/config.site.ncbi
and {W}/src/build-system/config.site.ex into ${W}/src/build-system/config.site
