* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-02-14 16:40 Martin Mokrejs
0 siblings, 0 replies; 11+ messages in thread
From: Martin Mokrejs @ 2011-02-14 16:40 UTC (permalink / raw
To: gentoo-commits
commit: 2edce2dbf5c139d4995cd7d1eadcb4d4f09139ca
Author: Martin Mokrejs <mmokrejs <AT> gentoo <DOT> org>
AuthorDate: Mon Feb 14 16:40:21 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Feb 14 16:40:21 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=2edce2db
sci-biology/estscan: new package, something wrong with IUSE?
(Portage version: 2.1.9.28/git/Linux i686, RepoMan options: --force, unsigned Manifest commit)
---
sci-biology/estscan/estscan-3.0.3.ebuild | 103 ++++++++++++++++++++++++++++++
sci-biology/estscan/metadata.xml | 9 +++
2 files changed, 112 insertions(+), 0 deletions(-)
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
new file mode 100644
index 0000000..789dd09
--- /dev/null
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -0,0 +1,103 @@
+# Copyright 1999-2008 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+inherit eutils toolchain-funcs
+inherit perl-module
+
+DESCRIPTION="Predict coding regions in DNA/RNA sequences even in low-quality reads with frameshift-causing errors (supersedes ESTscan and ESTscan2)"
+HOMEPAGE="http://sourceforge.net/projects/estscan/"
+SRC_URI="http://downloads.sourceforge.net/estscan/estscan-3.0.3.tar.gz
+ http://downloads.sourceforge.net/estscan/At.smat.gz
+ http://downloads.sourceforge.net/estscan/Dm.smat.gz
+ http://downloads.sourceforge.net/estscan/Dr.smat.gz
+ http://downloads.sourceforge.net/estscan/Hs.smat.gz
+ http://downloads.sourceforge.net/estscan/Mm.smat.gz
+ http://downloads.sourceforge.net/estscan/Rn.smat.gz
+ http://downloads.sourceforge.net/estscan/user_guide_fev_07.pdf
+ http://downloads.sourceforge.net/estscan/BTLib-0.19.tar.gz"
+
+LICENSE="estscan"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="icc ifc"
+
+DEPEND="icc? ( dev-lang/icc )
+ ifc? ( dev-lang/ifc )"
+
+RDEPEND=""
+
+S="${WORKDIR}"
+
+src_compile() {
+ #
+ sed -e 's/\\rm -f/rm -rf/' \
+ -e 's/^ LDFLAGS = -lm/LDFLAGS = -lm/' -i "${P}"/Makefile || die "failed to edit Makefile"
+
+ # fix hard-coded paths
+ sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/estscan.c || die
+ sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/estscan.spec || die
+
+ if ! use icc; then
+ sed -e 's/^ CFLAGS = -O2/#CFLAGS = ${CFLAGS}/' \
+ -e 's/^ FFLAGS = -O2/#FFLAGS = ${FFLAGS}/' \
+ -e "s/^ F77 = g77/F77 = $(tc-getF77)/" -i "${P}"/Makefile \
+ || die "blah"
+ else
+ # FIXME: I would use $(tc-getCC) instead of hard-coded icc but it gives
+ # me gcc instead, same for $(tc-getF77)
+ # Moreover, the if/else logic here should separate users having only icc
+ # while not ifort (and vice-versa) from those having only
+ # gcc/gfortran/g77
+ #
+ # FIXME: below as a dirty hack I force gfortran instead of ifort for
+ # my testing purposes. Didn't ebuild contain "PROVIDES" line?
+ # Same for FFLAGS.
+ sed -e "s:^# CC = icc:CC = icc:" \
+ -e "s:^# CFLAGS = -O3 -ipo -axP:#CFLAGS = -O3 -ipo -axP:" \
+ -e "s:^# FFLAGS = -O3 -ipo -axP:#FFLAGS = -O3 -ipo -axP:" \
+ -e "s/^ CFLAGS = -O2/#CFLAGS = -O2/" \
+ -e "s/^# F77 = ifort/F77 = gfortran/" \
+ -e "s/^ FFLAGS = -O2/#FFLAGS = -O2/" \
+ -e "s/^ CC = gcc/# CC = gcc/" \
+ -e "s/^ F77 = g77/# F77 = g77/" -i "${P}"/Makefile || die "sed failed to fix CFLAGS, FFLAGS, CC, F77"
+ fi
+ cd "${P}" || die "chdir "${P}" failed"
+ emake || die "emake failed"
+
+ cd ../BTLib-0.19 || die "cd ../BTLib-0.19 failed"
+ perl Makefile.PL || die "perl Makefile.PL failed"
+}
+
+src_install() {
+ # FIXME: Some kind of documentation is in {P}/estscan.spec
+ cd "${P}"
+ dobin build_model estscan evaluate_model extract_EST extract_UG_EST extract_mRNA makesmat maskred prepare_data winsegshuffle || die "dobin failed"
+ # the file build_model_utils.pl should go into some PERL site-packages dir
+ # see {P}/estscan.spec
+
+ # install the doc (but is not in ${WORKDIR} because src_UNPACK() failed on it
+ cd "${WORKDIR}" || die
+ insinto /usr/share/doc/ESTscan
+ # grab the file directly from ../distdir/
+ doins ../distdir/user_guide_fev_07.pdf || die "failed to install user_guide_fev_07.pdf"
+
+ # install the default precomputed matrices
+ cd "${WORKDIR}" || die
+ insinto /usr/share/ESTscan
+ doins *.smat || die "Failed to install matrices"
+
+ # install BTlib (in perl)
+ cd BTLib-0.19 || die
+ dobin fetch indexer netfetch || die "dobin failed"
+ insinto /usr/share/ESTscan/
+ doins fetch.conf || die "Failed to install fetch.conf"
+
+ # FIXME: install the *.pm files from BTLib-0.19
+ myinst="DESTDIR=${D}"
+ perl-module_src_install || die "perl-module_src_install failed"
+
+ einfo "Please edit /usr/share/ESTscan/fetch.conf to fit your local database layout."
+ einfo "Also create your own scoring matrices and place them into /usr/share/ESTscan/."
+ einfo "You may follow the hints from http://estscan.sourceforge.net/"
+}
diff --git a/sci-biology/estscan/metadata.xml b/sci-biology/estscan/metadata.xml
new file mode 100644
index 0000000..07b5255
--- /dev/null
+++ b/sci-biology/estscan/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+ <herd>sci-biology</herd>
+ <maintainer>
+ <email>mmokrejs@fold.natur.cuni.cz</email>
+ <name>Martin Mokrejs</name>
+ </maintainer>
+</pkgmetadata>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-02-14 20:52 Martin Mokrejs
0 siblings, 0 replies; 11+ messages in thread
From: Martin Mokrejs @ 2011-02-14 20:52 UTC (permalink / raw
To: gentoo-commits
commit: 5026f8b8903209ec5339b2b7a3a3a20cf75fd4bd
Author: Martin Mokrejs <mmokrejs <AT> gentoo <DOT> org>
AuthorDate: Mon Feb 14 20:52:30 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Feb 14 20:52:30 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=5026f8b8
sci-biology/estscan: added missing EAPI line
(Portage version: 2.1.9.28/git/Linux i686, RepoMan options: --force, unsigned Manifest commit)
---
sci-biology/estscan/estscan-3.0.3.ebuild | 5 +++--
1 files changed, 3 insertions(+), 2 deletions(-)
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index 789dd09..ed57342 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -2,8 +2,9 @@
# Distributed under the terms of the GNU General Public License v2
# $Header: $
-inherit eutils toolchain-funcs
-inherit perl-module
+EAPI=3
+
+inherit eutils toolchain-funcs perl-module
DESCRIPTION="Predict coding regions in DNA/RNA sequences even in low-quality reads with frameshift-causing errors (supersedes ESTscan and ESTscan2)"
HOMEPAGE="http://sourceforge.net/projects/estscan/"
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-06-21 11:54 Justin Lecher
0 siblings, 0 replies; 11+ messages in thread
From: Justin Lecher @ 2011-06-21 11:54 UTC (permalink / raw
To: gentoo-commits
commit: 6afc15024338257900f07f5037939f9ccd0adb01
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Tue Jun 21 11:54:03 2011 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Tue Jun 21 11:54:03 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=6afc1502
Added fortran-2.eclass support
(Portage version: 2.2.0_alpha41/git/Linux x86_64, signed Manifest commit with key 70EB7916)
---
sci-biology/estscan/ChangeLog | 8 ++++++++
sci-biology/estscan/estscan-3.0.3.ebuild | 28 ++++++++++++++--------------
sci-biology/estscan/metadata.xml | 2 ++
3 files changed, 24 insertions(+), 14 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
new file mode 100644
index 0000000..53ccd85
--- /dev/null
+++ b/sci-biology/estscan/ChangeLog
@@ -0,0 +1,8 @@
+# ChangeLog for sci-biology/estscan
+# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+ 21 Jun 2011; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild,
+ metadata.xml:
+ Added fortran-2.eclass support
+
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index ed57342..31c1537 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -1,31 +1,31 @@
-# Copyright 1999-2008 Gentoo Foundation
+# Copyright 1999-2011 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: $
EAPI=3
-inherit eutils toolchain-funcs perl-module
+inherit eutils fortran-2 toolchain-funcs perl-module
-DESCRIPTION="Predict coding regions in DNA/RNA sequences even in low-quality reads with frameshift-causing errors (supersedes ESTscan and ESTscan2)"
+DESCRIPTION="Prediction of coding regions in DNA/RNA sequences"
HOMEPAGE="http://sourceforge.net/projects/estscan/"
-SRC_URI="http://downloads.sourceforge.net/estscan/estscan-3.0.3.tar.gz
- http://downloads.sourceforge.net/estscan/At.smat.gz
- http://downloads.sourceforge.net/estscan/Dm.smat.gz
- http://downloads.sourceforge.net/estscan/Dr.smat.gz
- http://downloads.sourceforge.net/estscan/Hs.smat.gz
- http://downloads.sourceforge.net/estscan/Mm.smat.gz
- http://downloads.sourceforge.net/estscan/Rn.smat.gz
- http://downloads.sourceforge.net/estscan/user_guide_fev_07.pdf
- http://downloads.sourceforge.net/estscan/BTLib-0.19.tar.gz"
+SRC_URI="
+ http://downloads.sourceforge.net/estscan/estscan-3.0.3.tar.gz
+ http://downloads.sourceforge.net/estscan/At.smat.gz
+ http://downloads.sourceforge.net/estscan/Dm.smat.gz
+ http://downloads.sourceforge.net/estscan/Dr.smat.gz
+ http://downloads.sourceforge.net/estscan/Hs.smat.gz
+ http://downloads.sourceforge.net/estscan/Mm.smat.gz
+ http://downloads.sourceforge.net/estscan/Rn.smat.gz
+ http://downloads.sourceforge.net/estscan/user_guide_fev_07.pdf
+ http://downloads.sourceforge.net/estscan/BTLib-0.19.tar.gz"
-LICENSE="estscan"
SLOT="0"
+LICENSE="estscan"
KEYWORDS="~x86 ~amd64"
IUSE="icc ifc"
DEPEND="icc? ( dev-lang/icc )
ifc? ( dev-lang/ifc )"
-
RDEPEND=""
S="${WORKDIR}"
diff --git a/sci-biology/estscan/metadata.xml b/sci-biology/estscan/metadata.xml
index 07b5255..cf485a9 100644
--- a/sci-biology/estscan/metadata.xml
+++ b/sci-biology/estscan/metadata.xml
@@ -6,4 +6,6 @@
<email>mmokrejs@fold.natur.cuni.cz</email>
<name>Martin Mokrejs</name>
</maintainer>
+<use><flag name='ifc'> Use ifc</flag></use>
+<use><flag name='icc'> Use icc</flag></use>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-06-23 9:31 Justin Lecher
0 siblings, 0 replies; 11+ messages in thread
From: Justin Lecher @ 2011-06-23 9:31 UTC (permalink / raw
To: gentoo-commits
commit: 19436f14054cdfa74b4b5cbf0b9706ee5ba30338
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Thu Jun 23 09:10:47 2011 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Thu Jun 23 09:10:47 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=19436f14
Streamlined fortran-2 eclass usage
(Portage version: 2.2.0_alpha41/git/Linux x86_64, signed Manifest commit with key 70EB7916)
---
sci-biology/estscan/ChangeLog | 4 ++
sci-biology/estscan/estscan-3.0.3.ebuild | 65 +++++++++++++++++------------
sci-biology/estscan/metadata.xml | 3 +-
3 files changed, 43 insertions(+), 29 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
index 53ccd85..ff0f2e4 100644
--- a/sci-biology/estscan/ChangeLog
+++ b/sci-biology/estscan/ChangeLog
@@ -2,6 +2,10 @@
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 23 Jun 2011; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild,
+ metadata.xml:
+ Streamlined fortran-2 eclass usage
+
21 Jun 2011; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild,
metadata.xml:
Added fortran-2.eclass support
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index 31c1537..d282860 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -2,9 +2,9 @@
# Distributed under the terms of the GNU General Public License v2
# $Header: $
-EAPI=3
+EAPI=4
-inherit eutils fortran-2 toolchain-funcs perl-module
+inherit eutils fortran-2 perl-module toolchain-funcs
DESCRIPTION="Prediction of coding regions in DNA/RNA sequences"
HOMEPAGE="http://sourceforge.net/projects/estscan/"
@@ -22,28 +22,33 @@ SRC_URI="
SLOT="0"
LICENSE="estscan"
KEYWORDS="~x86 ~amd64"
-IUSE="icc ifc"
+IUSE="intel"
-DEPEND="icc? ( dev-lang/icc )
- ifc? ( dev-lang/ifc )"
-RDEPEND=""
+DEPEND="
+ virtual/fortran
+ intel? (
+ dev-lang/icc
+ dev-lang/ifc )"
+RDEPEND="${DEPEND}"
S="${WORKDIR}"
-src_compile() {
- #
- sed -e 's/\\rm -f/rm -rf/' \
- -e 's/^ LDFLAGS = -lm/LDFLAGS = -lm/' -i "${P}"/Makefile || die "failed to edit Makefile"
+src_prepare() {
+ sed \
+ -e 's/\\rm -f/rm -rf/' \
+ -e 's/^ LDFLAGS = -lm/LDFLAGS = -lm/' \
+ -i "${P}"/Makefile || die "failed to edit Makefile"
# fix hard-coded paths
sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/estscan.c || die
sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/estscan.spec || die
if ! use icc; then
- sed -e 's/^ CFLAGS = -O2/#CFLAGS = ${CFLAGS}/' \
+ sed \
+ -e 's/^ CFLAGS = -O2/#CFLAGS = ${CFLAGS}/' \
-e 's/^ FFLAGS = -O2/#FFLAGS = ${FFLAGS}/' \
-e "s/^ F77 = g77/F77 = $(tc-getF77)/" -i "${P}"/Makefile \
- || die "blah"
+ || die
else
# FIXME: I would use $(tc-getCC) instead of hard-coded icc but it gives
# me gcc instead, same for $(tc-getF77)
@@ -54,49 +59,55 @@ src_compile() {
# FIXME: below as a dirty hack I force gfortran instead of ifort for
# my testing purposes. Didn't ebuild contain "PROVIDES" line?
# Same for FFLAGS.
- sed -e "s:^# CC = icc:CC = icc:" \
- -e "s:^# CFLAGS = -O3 -ipo -axP:#CFLAGS = -O3 -ipo -axP:" \
+ sed \
+ -e "s:^# CC = icc:CC = icc:" \
+ -e "s:^# CFLAGS = -O3 -ipo -axP:#CFLAGS = -O3 -ipo -axP:" \
-e "s:^# FFLAGS = -O3 -ipo -axP:#FFLAGS = -O3 -ipo -axP:" \
-e "s/^ CFLAGS = -O2/#CFLAGS = -O2/" \
-e "s/^# F77 = ifort/F77 = gfortran/" \
-e "s/^ FFLAGS = -O2/#FFLAGS = -O2/" \
-e "s/^ CC = gcc/# CC = gcc/" \
- -e "s/^ F77 = g77/# F77 = g77/" -i "${P}"/Makefile || die "sed failed to fix CFLAGS, FFLAGS, CC, F77"
+ -e "s/^ F77 = g77/# F77 = g77/" \
+ -i "${P}"/Makefile || die "sed failed to fix CFLAGS, FFLAGS, CC, F77"
fi
- cd "${P}" || die "chdir "${P}" failed"
- emake || die "emake failed"
+}
+
+src_compile() {
+ emake -C ${P}
- cd ../BTLib-0.19 || die "cd ../BTLib-0.19 failed"
+ cd ../BTLib-0.19
perl Makefile.PL || die "perl Makefile.PL failed"
}
src_install() {
# FIXME: Some kind of documentation is in {P}/estscan.spec
- cd "${P}"
- dobin build_model estscan evaluate_model extract_EST extract_UG_EST extract_mRNA makesmat maskred prepare_data winsegshuffle || die "dobin failed"
+ cd ${P}
+ dobin \
+ build_model estscan evaluate_model extract_EST extract_UG_EST \
+ extract_mRNA makesmat maskred prepare_data winsegshuffle
# the file build_model_utils.pl should go into some PERL site-packages dir
# see {P}/estscan.spec
# install the doc (but is not in ${WORKDIR} because src_UNPACK() failed on it
- cd "${WORKDIR}" || die
+ cd "${WORKDIR}"
insinto /usr/share/doc/ESTscan
# grab the file directly from ../distdir/
- doins ../distdir/user_guide_fev_07.pdf || die "failed to install user_guide_fev_07.pdf"
+ doins ../distdir/user_guide_fev_07.pdf
# install the default precomputed matrices
- cd "${WORKDIR}" || die
+ cd "${WORKDIR}"
insinto /usr/share/ESTscan
- doins *.smat || die "Failed to install matrices"
+ doins *.smat
# install BTlib (in perl)
cd BTLib-0.19 || die
- dobin fetch indexer netfetch || die "dobin failed"
+ dobin fetch indexer netfetch
insinto /usr/share/ESTscan/
- doins fetch.conf || die "Failed to install fetch.conf"
+ doins fetch.conf
# FIXME: install the *.pm files from BTLib-0.19
myinst="DESTDIR=${D}"
- perl-module_src_install || die "perl-module_src_install failed"
+ perl-module_src_install
einfo "Please edit /usr/share/ESTscan/fetch.conf to fit your local database layout."
einfo "Also create your own scoring matrices and place them into /usr/share/ESTscan/."
diff --git a/sci-biology/estscan/metadata.xml b/sci-biology/estscan/metadata.xml
index cf485a9..a68ccd8 100644
--- a/sci-biology/estscan/metadata.xml
+++ b/sci-biology/estscan/metadata.xml
@@ -6,6 +6,5 @@
<email>mmokrejs@fold.natur.cuni.cz</email>
<name>Martin Mokrejs</name>
</maintainer>
-<use><flag name='ifc'> Use ifc</flag></use>
-<use><flag name='icc'> Use icc</flag></use>
+<use><flag name='intel'> Use intel compiler</flag></use>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-07-30 11:05 Martin Mokrejs
0 siblings, 0 replies; 11+ messages in thread
From: Martin Mokrejs @ 2011-07-30 11:05 UTC (permalink / raw
To: gentoo-commits
commit: c682d1e50bdf2b4dffc7f97d0d4879920d02a112
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sat Jul 30 11:05:27 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sat Jul 30 11:05:27 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=c682d1e5
some ebuild cleanup
(Portage version: 2.1.10.7/git/Linux i686, unsigned Manifest commit)
---
sci-biology/estscan/ChangeLog | 4 +++
sci-biology/estscan/estscan-3.0.3.ebuild | 31 +++++++++++++++--------------
2 files changed, 20 insertions(+), 15 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
index ff0f2e4..bce0bfa 100644
--- a/sci-biology/estscan/ChangeLog
+++ b/sci-biology/estscan/ChangeLog
@@ -2,6 +2,10 @@
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ estscan-3.0.3.ebuild:
+ some ebuild cleanup estscan-3.0.3.ebuild
+
23 Jun 2011; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild,
metadata.xml:
Streamlined fortran-2 eclass usage
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index d282860..913303a 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -21,14 +21,16 @@ SRC_URI="
SLOT="0"
LICENSE="estscan"
-KEYWORDS="~x86 ~amd64"
+KEYWORDS=""
+#KEYWORDS="~x86 ~amd64"
IUSE="intel"
DEPEND="
virtual/fortran
intel? (
dev-lang/icc
- dev-lang/ifc )"
+ dev-lang/ifc )
+ dev-perl/BTLib"
RDEPEND="${DEPEND}"
S="${WORKDIR}"
@@ -74,40 +76,39 @@ src_prepare() {
src_compile() {
emake -C ${P}
-
- cd ../BTLib-0.19
- perl Makefile.PL || die "perl Makefile.PL failed"
}
src_install() {
# FIXME: Some kind of documentation is in {P}/estscan.spec
- cd ${P}
+ cd ${P} || die "Failed to chdir to "${P}"
dobin \
build_model estscan evaluate_model extract_EST extract_UG_EST \
extract_mRNA makesmat maskred prepare_data winsegshuffle
# the file build_model_utils.pl should go into some PERL site-packages dir
# see {P}/estscan.spec
- # install the doc (but is not in ${WORKDIR} because src_UNPACK() failed on it
- cd "${WORKDIR}"
+ # install the doc (but is not in ${WORKDIR} because src_unpack() failed on it as it has .pdf extension
+ cd "${DISTDIR}" || die "Failed to chdir to "${DISTDIR}"
insinto /usr/share/doc/ESTscan
# grab the file directly from ../distdir/
- doins ../distdir/user_guide_fev_07.pdf
+ doins "${DISTDIR}"/user_guide_fev_07.pdf
# install the default precomputed matrices
- cd "${WORKDIR}"
+ cd "${WORKDIR}" || die "Failed to chdir to "${WORKDIR}"
insinto /usr/share/ESTscan
doins *.smat
# install BTlib (in perl)
- cd BTLib-0.19 || die
- dobin fetch indexer netfetch
+ # dobin fetch indexer netfetch
insinto /usr/share/ESTscan/
- doins fetch.conf
+ # install the config file which is packed inside the BTLib tarball while is not
+ # being installed by dev-perl/BTLib
+ doins "${WORKDIR}"/BTLib-0.19/fetch.conf
# FIXME: install the *.pm files from BTLib-0.19
- myinst="DESTDIR=${D}"
- perl-module_src_install
+ # cd "${WORKDIR}"/BTLib-0.19 || die "Failed to chdir to "${WORKDIR}"/BTLib-0.19
+ # myinst="DESTDIR=${D}"
+ # perl-module_src_install
einfo "Please edit /usr/share/ESTscan/fetch.conf to fit your local database layout."
einfo "Also create your own scoring matrices and place them into /usr/share/ESTscan/."
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-12-12 11:57 Martin Mokrejs
0 siblings, 0 replies; 11+ messages in thread
From: Martin Mokrejs @ 2011-12-12 11:57 UTC (permalink / raw
To: gentoo-commits
commit: 27543e53210e1cd1d2d2fbc72441c86129cc5a2d
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Mon Dec 12 11:57:30 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Dec 12 11:57:30 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=27543e53
ebuild cleanup, works, releasing for testing
---
sci-biology/estscan/ChangeLog | 4 +++
sci-biology/estscan/estscan-3.0.3.ebuild | 34 +++++++++++++++++++----------
sci-biology/estscan/metadata.xml | 1 -
3 files changed, 26 insertions(+), 13 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
index bce0bfa..b42f65c 100644
--- a/sci-biology/estscan/ChangeLog
+++ b/sci-biology/estscan/ChangeLog
@@ -2,6 +2,10 @@
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ estscan-3.0.3.ebuild:
+ ebuild cleanup, works, releasing for testing estscan-3.0.3.ebuild
+
30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
estscan-3.0.3.ebuild:
some ebuild cleanup estscan-3.0.3.ebuild
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index 913303a..83e92d1 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -21,15 +21,13 @@ SRC_URI="
SLOT="0"
LICENSE="estscan"
-KEYWORDS=""
-#KEYWORDS="~x86 ~amd64"
-IUSE="intel"
+KEYWORDS="~x86 ~amd64"
+IUSE="icc ifc"
DEPEND="
virtual/fortran
- intel? (
- dev-lang/icc
- dev-lang/ifc )
+ icc? ( dev-lang/icc )
+ ifc? ( dev-lang/ifc )
dev-perl/BTLib"
RDEPEND="${DEPEND}"
@@ -47,11 +45,17 @@ src_prepare() {
if ! use icc; then
sed \
- -e 's/^ CFLAGS = -O2/#CFLAGS = ${CFLAGS}/' \
+ -e 's/^ CFLAGS = -O2/#CFLAGS = ${CFLAGS}/' -i "${P}"/Makefile || die
+ fi
+
+ if ! use ifc; then
+ sed \
-e 's/^ FFLAGS = -O2/#FFLAGS = ${FFLAGS}/' \
-e "s/^ F77 = g77/F77 = $(tc-getF77)/" -i "${P}"/Makefile \
|| die
- else
+ fi
+
+ if use icc; then
# FIXME: I would use $(tc-getCC) instead of hard-coded icc but it gives
# me gcc instead, same for $(tc-getF77)
# Moreover, the if/else logic here should separate users having only icc
@@ -63,14 +67,20 @@ src_prepare() {
# Same for FFLAGS.
sed \
-e "s:^# CC = icc:CC = icc:" \
- -e "s:^# CFLAGS = -O3 -ipo -axP:#CFLAGS = -O3 -ipo -axP:" \
- -e "s:^# FFLAGS = -O3 -ipo -axP:#FFLAGS = -O3 -ipo -axP:" \
+ -e "s:^# CFLAGS = -O3 -ipo -axP:#CFLAGS = -O3 -ipo -axP:" \
-e "s/^ CFLAGS = -O2/#CFLAGS = -O2/" \
+ -e "s/^ CC = gcc/# CC = gcc/" \
+ -i "${P}"/Makefile || die "sed failed to fix CFLAGS and CC"
+
+ fi
+
+ if use ifc; then
+ sed \
+ -e "s:^# FFLAGS = -O3 -ipo -axP:#FFLAGS = -O3 -ipo -axP:" \
-e "s/^# F77 = ifort/F77 = gfortran/" \
-e "s/^ FFLAGS = -O2/#FFLAGS = -O2/" \
- -e "s/^ CC = gcc/# CC = gcc/" \
-e "s/^ F77 = g77/# F77 = g77/" \
- -i "${P}"/Makefile || die "sed failed to fix CFLAGS, FFLAGS, CC, F77"
+ -i "${P}"/Makefile || die "sed failed to fix FFLAGS and F77"
fi
}
diff --git a/sci-biology/estscan/metadata.xml b/sci-biology/estscan/metadata.xml
index a68ccd8..07b5255 100644
--- a/sci-biology/estscan/metadata.xml
+++ b/sci-biology/estscan/metadata.xml
@@ -6,5 +6,4 @@
<email>mmokrejs@fold.natur.cuni.cz</email>
<name>Martin Mokrejs</name>
</maintainer>
-<use><flag name='intel'> Use intel compiler</flag></use>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-12-12 12:09 Martin Mokrejs
0 siblings, 0 replies; 11+ messages in thread
From: Martin Mokrejs @ 2011-12-12 12:09 UTC (permalink / raw
To: gentoo-commits
commit: 7e23b794ed5d546c17ba5ddf20d3d46cb0ea20c9
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Mon Dec 12 12:09:12 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Dec 12 12:09:12 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=7e23b794
remove offending double-quotes
---
sci-biology/estscan/estscan-3.0.3.ebuild | 6 +++---
1 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index 83e92d1..a7d8096 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -90,7 +90,7 @@ src_compile() {
src_install() {
# FIXME: Some kind of documentation is in {P}/estscan.spec
- cd ${P} || die "Failed to chdir to "${P}"
+ cd ${P} || die "Failed to chdir to ${P}"
dobin \
build_model estscan evaluate_model extract_EST extract_UG_EST \
extract_mRNA makesmat maskred prepare_data winsegshuffle
@@ -98,13 +98,13 @@ src_install() {
# see {P}/estscan.spec
# install the doc (but is not in ${WORKDIR} because src_unpack() failed on it as it has .pdf extension
- cd "${DISTDIR}" || die "Failed to chdir to "${DISTDIR}"
+ cd "${DISTDIR}" || die "Failed to chdir to ${DISTDIR}"
insinto /usr/share/doc/ESTscan
# grab the file directly from ../distdir/
doins "${DISTDIR}"/user_guide_fev_07.pdf
# install the default precomputed matrices
- cd "${WORKDIR}" || die "Failed to chdir to "${WORKDIR}"
+ cd "${WORKDIR}" || die "Failed to chdir to ${WORKDIR}"
insinto /usr/share/ESTscan
doins *.smat
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2011-12-13 9:41 Martin Mokrejs
0 siblings, 0 replies; 11+ messages in thread
From: Martin Mokrejs @ 2011-12-13 9:41 UTC (permalink / raw
To: gentoo-commits
commit: 4fee9bd98125a0ea51b7366f011e8c29d244bc60
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Dec 13 09:41:18 2011 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Dec 13 09:41:18 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=4fee9bd9
sci-biology/estscan: added Manifest file
---
sci-biology/estscan/ChangeLog | 4 ++++
1 files changed, 4 insertions(+), 0 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
index b42f65c..5dc0f12 100644
--- a/sci-biology/estscan/ChangeLog
+++ b/sci-biology/estscan/ChangeLog
@@ -4,6 +4,10 @@
12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
estscan-3.0.3.ebuild:
+ remove offending double-quotes
+
+ 12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ estscan-3.0.3.ebuild:
ebuild cleanup, works, releasing for testing estscan-3.0.3.ebuild
30 Jul 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2013-03-03 17:52 Justin Lecher
0 siblings, 0 replies; 11+ messages in thread
From: Justin Lecher @ 2013-03-03 17:52 UTC (permalink / raw
To: gentoo-commits
commit: b99810bb14125402d9e225637ad9d807251502e3
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sun Mar 3 17:40:30 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Mar 3 17:40:30 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=b99810bb
sci-biology/estscan: Add local USE to metadata.xml
Package-Manager: portage-2.2.0_alpha164
RepoMan-Options: --force
---
sci-biology/estscan/ChangeLog | 5 ++++-
sci-biology/estscan/metadata.xml | 16 +++++++++++-----
2 files changed, 15 insertions(+), 6 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
index 5dc0f12..de16cc8 100644
--- a/sci-biology/estscan/ChangeLog
+++ b/sci-biology/estscan/ChangeLog
@@ -1,7 +1,10 @@
# ChangeLog for sci-biology/estscan
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 03 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
+ Add local USE to metadata.xml
+
12 Dec 2011; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
estscan-3.0.3.ebuild:
remove offending double-quotes
diff --git a/sci-biology/estscan/metadata.xml b/sci-biology/estscan/metadata.xml
index 07b5255..14aff5c 100644
--- a/sci-biology/estscan/metadata.xml
+++ b/sci-biology/estscan/metadata.xml
@@ -1,9 +1,15 @@
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
- <herd>sci-biology</herd>
- <maintainer>
- <email>mmokrejs@fold.natur.cuni.cz</email>
- <name>Martin Mokrejs</name>
- </maintainer>
+ <herd>sci-biology</herd>
+ <maintainer>
+ <email>mmokrejs@fold.natur.cuni.cz</email>
+ <name>Martin Mokrejs</name>
+ </maintainer>
+ <use>
+ <flag name="icc">Undocumented USE</flag>
+ </use>
+ <use>
+ <flag name="ifc">Undocumented USE</flag>
+ </use>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2014-09-24 6:45 Justin Lecher
0 siblings, 0 replies; 11+ messages in thread
From: Justin Lecher @ 2014-09-24 6:45 UTC (permalink / raw
To: gentoo-commits
commit: b1b5577ab5e375948132c3dba0db7bde29968bf8
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Wed Sep 24 06:32:18 2014 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Sep 24 06:32:18 2014 +0000
URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=b1b5577a
sci-biology/estscan: Bump to EAPI=5
Package-Manager: portage-2.2.13
---
sci-biology/estscan/ChangeLog | 5 +++-
sci-biology/estscan/estscan-3.0.3.ebuild | 50 +++++++++++++++-----------------
2 files changed, 28 insertions(+), 27 deletions(-)
diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog
index de16cc8..c19b120 100644
--- a/sci-biology/estscan/ChangeLog
+++ b/sci-biology/estscan/ChangeLog
@@ -1,7 +1,10 @@
# ChangeLog for sci-biology/estscan
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 24 Sep 2014; Justin Lecher <jlec@gentoo.org> estscan-3.0.3.ebuild:
+ Bump to EAPI=5
+
03 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
Add local USE to metadata.xml
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index a9a9de0..58514a3 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -2,22 +2,22 @@
# Distributed under the terms of the GNU General Public License v2
# $Header: $
-EAPI=4
+EAPI=5
inherit eutils fortran-2 perl-module toolchain-funcs
DESCRIPTION="Prediction of coding regions in DNA/RNA sequences"
-HOMEPAGE="http://sourceforge.net/projects/estscan/"
+HOMEPAGE="http://sourceforge.net/projects/${PN}/"
SRC_URI="
- http://downloads.sourceforge.net/estscan/estscan-3.0.3.tar.gz
- http://downloads.sourceforge.net/estscan/At.smat.gz
- http://downloads.sourceforge.net/estscan/Dm.smat.gz
- http://downloads.sourceforge.net/estscan/Dr.smat.gz
- http://downloads.sourceforge.net/estscan/Hs.smat.gz
- http://downloads.sourceforge.net/estscan/Mm.smat.gz
- http://downloads.sourceforge.net/estscan/Rn.smat.gz
- http://downloads.sourceforge.net/estscan/user_guide_fev_07.pdf
- http://downloads.sourceforge.net/estscan/BTLib-0.19.tar.gz"
+ http://downloads.sourceforge.net/${PN}/${P}.tar.gz
+ http://downloads.sourceforge.net/${PN}/At.smat.gz
+ http://downloads.sourceforge.net/${PN}/Dm.smat.gz
+ http://downloads.sourceforge.net/${PN}/Dr.smat.gz
+ http://downloads.sourceforge.net/${PN}/Hs.smat.gz
+ http://downloads.sourceforge.net/${PN}/Mm.smat.gz
+ http://downloads.sourceforge.net/${PN}/Rn.smat.gz
+ http://downloads.sourceforge.net/${PN}/user_guide_fev_07.pdf
+ http://downloads.sourceforge.net/${PN}/BTLib-0.19.tar.gz"
SLOT="0"
LICENSE="estscan"
@@ -25,10 +25,9 @@ KEYWORDS="~x86 ~amd64"
IUSE="icc ifc"
DEPEND="
- virtual/fortran
+ dev-perl/BTLib
icc? ( dev-lang/icc )
- ifc? ( dev-lang/ifc )
- dev-perl/BTLib"
+ ifc? ( dev-lang/ifc )"
RDEPEND="${DEPEND}"
S="${WORKDIR}"
@@ -40,8 +39,8 @@ src_prepare() {
-i "${P}"/Makefile || die "failed to edit Makefile"
# fix hard-coded paths
- sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/estscan.c || die
- sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/estscan.spec || die
+ sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/${PN}.c || die
+ sed -e 's+/usr/molbio/share/ESTScan+/usr/share/ESTscan+' -i "${P}"/${PN}.spec || die
if ! use icc; then
sed \
@@ -89,28 +88,27 @@ src_compile() {
}
src_install() {
- # FIXME: Some kind of documentation is in {P}/estscan.spec
+ # FIXME: Some kind of documentation is in {P}/${PN}.spec
cd ${P} || die "Failed to chdir to ${P}"
dobin \
- build_model estscan evaluate_model extract_EST extract_UG_EST \
+ build_model ${PN} evaluate_model extract_EST extract_UG_EST \
extract_mRNA makesmat maskred prepare_data winsegshuffle
# the file build_model_utils.pl should go into some PERL site-packages dir
- # see {P}/estscan.spec
+ # see {P}/${PN}.spec
# install the doc (but is not in ${WORKDIR} because src_unpack() failed on it as it has .pdf extension
- cd "${DISTDIR}" || die "Failed to chdir to ${DISTDIR}"
- insinto /usr/share/doc/ESTscan
+ insinto /usr/share/doc/${PN}
# grab the file directly from ../distdir/
doins "${DISTDIR}"/user_guide_fev_07.pdf
# install the default precomputed matrices
cd "${WORKDIR}" || die "Failed to chdir to ${WORKDIR}"
- insinto /usr/share/ESTscan
+ insinto /usr/share/${PN}
doins *.smat
# install BTlib (in perl)
# dobin fetch indexer netfetch
- insinto /usr/share/ESTscan/
+ insinto /usr/share/${PN}/
# install the config file which is packed inside the BTLib tarball while is not
# being installed by dev-perl/BTLib
doins "${WORKDIR}"/BTLib-0.19/fetch.conf
@@ -120,7 +118,7 @@ src_install() {
# myinst="DESTDIR=${D}"
# perl-module_src_install
- einfo "Please edit /usr/share/ESTscan/fetch.conf to fit your local database layout."
- einfo "Also create your own scoring matrices and place them into /usr/share/ESTscan/."
- einfo "You may follow the hints from http://estscan.sourceforge.net/"
+ einfo "Please edit /usr/share/${PN}/fetch.conf to fit your local database layout."
+ einfo "Also create your own scoring matrices and place them into /usr/share/${PN}/."
+ einfo "You may follow the hints from http://${PN}.sourceforge.net/"
}
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/estscan/
@ 2021-01-19 17:09 Andrew Ammerlaan
0 siblings, 0 replies; 11+ messages in thread
From: Andrew Ammerlaan @ 2021-01-19 17:09 UTC (permalink / raw
To: gentoo-commits
commit: 282d15cf92ff41e33425c78467e852417009af2b
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Tue Jan 19 17:05:23 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Tue Jan 19 17:05:23 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=282d15cf
sci-biology/estscan: remove PN from homepage
Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
sci-biology/estscan/estscan-3.0.3.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild
index 303657591..a0992b76b 100644
--- a/sci-biology/estscan/estscan-3.0.3.ebuild
+++ b/sci-biology/estscan/estscan-3.0.3.ebuild
@@ -6,7 +6,7 @@ EAPI=7
inherit fortran-2 perl-module toolchain-funcs
DESCRIPTION="Prediction of coding regions in DNA/RNA sequences"
-HOMEPAGE="https://sourceforge.net/projects/${PN}/"
+HOMEPAGE="https://sourceforge.net/projects/estscan/"
SRC_URI="
https://downloads.sourceforge.net/${PN}/${P}.tar.gz
https://downloads.sourceforge.net/${PN}/At.smat.gz
^ permalink raw reply related [flat|nested] 11+ messages in thread
end of thread, other threads:[~2021-01-19 17:09 UTC | newest]
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2021-01-19 17:09 Andrew Ammerlaan
2014-09-24 6:45 Justin Lecher
2013-03-03 17:52 Justin Lecher
2011-12-13 9:41 Martin Mokrejs
2011-12-12 12:09 Martin Mokrejs
2011-12-12 11:57 Martin Mokrejs
2011-07-30 11:05 Martin Mokrejs
2011-06-23 9:31 Justin Lecher
2011-06-21 11:54 Justin Lecher
2011-02-14 16:40 Martin Mokrejs
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