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commit: bfc6c33552bb57d4e7e56686c91ae99e364e1bf3 |
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Author: David Seifert <soap <AT> gentoo <DOT> org> |
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AuthorDate: Wed Jan 10 09:34:16 2018 +0000 |
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Commit: David Seifert <soap <AT> gentoo <DOT> org> |
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CommitDate: Wed Jan 10 09:52:21 2018 +0000 |
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URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bfc6c335 |
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|
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sci-biology/libgtextutils: Initial addition |
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|
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Closes: https://bugs.gentoo.org/486380 |
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Package-Manager: Portage-2.3.19, Repoman-2.3.6 |
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|
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sci-biology/libgtextutils/Manifest | 1 + |
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.../libgtextutils-0.6.1-fix-build-system.patch | 61 ++++++++++++++++++++++ |
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.../files/libgtextutils-0.6.1-gcc6.patch | 22 ++++++++ |
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.../libgtextutils/libgtextutils-0.6.1.ebuild | 36 +++++++++++++ |
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sci-biology/libgtextutils/metadata.xml | 12 +++++ |
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5 files changed, 132 insertions(+) |
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|
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diff --git a/sci-biology/libgtextutils/Manifest b/sci-biology/libgtextutils/Manifest |
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new file mode 100644 |
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index 00000000000..9480b9ec641 |
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--- /dev/null |
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+++ b/sci-biology/libgtextutils/Manifest |
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@@ -0,0 +1 @@ |
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+DIST libgtextutils-0.6.1.tar.bz2 273459 BLAKE2B 81b1e9b467287ed9551fc53abddf5757efb2dd1c98f0388e2128535fbe70b706badd5702a5b5c3cb19a34c26ffa218c9c41caf9f17770a015b09fc13fabe4d53 SHA512 0bc392385f9e6c345dff82b3fb04f322e8aceca769e15a3a87da6c718b6e9a7e1de082940d4bb0339a4c3a86f706fde0de047df459682aa9ea216d6e5c17eab6 |
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|
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diff --git a/sci-biology/libgtextutils/files/libgtextutils-0.6.1-fix-build-system.patch b/sci-biology/libgtextutils/files/libgtextutils-0.6.1-fix-build-system.patch |
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new file mode 100644 |
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index 00000000000..f7f608b792d |
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--- /dev/null |
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+++ b/sci-biology/libgtextutils/files/libgtextutils-0.6.1-fix-build-system.patch |
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@@ -0,0 +1,61 @@ |
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+--- a/configure.ac |
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++++ b/configure.ac |
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+@@ -15,7 +15,7 @@ |
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+ |
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+ AC_CONFIG_AUX_DIR(config) |
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+ AC_CONFIG_MACRO_DIR([m4]) |
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+-AM_CONFIG_HEADER(config.h) |
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++AC_CONFIG_HEADERS([config.h]) |
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+ AM_INIT_AUTOMAKE([dist-bzip2]) |
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+ |
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+ # dynamic library version |
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+@@ -25,12 +25,12 @@ |
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+ |
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+ AC_PROG_CC |
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+ AC_PROG_CXX |
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+-AC_PROG_LIBTOOL |
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++LT_INIT |
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+ |
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+ dnl --enable-wall |
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+-EXTRA_CHECKS="-Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror" |
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++EXTRA_CHECKS="-Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal" |
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+ AC_ARG_ENABLE(wall, |
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+-[ --enable-wall Enable many common GCC warnings (-Wall,-Wextra, -Werror etc., default enabled)], |
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++[ --enable-wall Enable many common GCC warnings (-Wall,-Wextra etc., default enabled)], |
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+ [case "${enableval}" in |
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+ yes) wall=true ;; |
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+ no) wall=false ;; |
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+@@ -42,22 +42,6 @@ |
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+ CXXFLAGS="${CXXFLAGS} ${EXTRA_CHECKS}" |
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+ fi |
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+ |
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+-dnl --enable-debug |
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+-AC_ARG_ENABLE(debug, |
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+-[ --enable-debug Enable debug mode (default enabled)], |
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+-[case "${enableval}" in |
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+- yes) debug=true ;; |
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+- no) debug=false ;; |
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+- *) AC_MSG_ERROR(bad value ${enableval} for --enable-debug) ;; |
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+-esac],[debug=true]) |
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+-if test "$debug" = "true" |
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+-then |
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+- CFLAGS="${CFLAGS} -DDEBUG -g -O1" |
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+- CXXFLAGS="${CFLAGS} -DDEBUG -g -O1" |
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+-else |
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+- CFLAGS="${CFLAGS} -O3" |
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+- CXXFLAGS="${CFLAGS} -O3" |
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+-fi |
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+ |
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+ |
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+ dnl --enable-tuple-parser-check |
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+--- a/Makefile.am |
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++++ b/Makefile.am |
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+@@ -9,7 +9,7 @@ |
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+ # implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. |
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+ |
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+ EXTRA_DIST = reconf configure |
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+-SUBDIRS = m4 src doc tests |
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++SUBDIRS = src doc tests |
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+ |
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+ pkgconfigdir = $(libdir)/pkgconfig |
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+ pkgconfig_DATA = gtextutils.pc |
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|
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diff --git a/sci-biology/libgtextutils/files/libgtextutils-0.6.1-gcc6.patch b/sci-biology/libgtextutils/files/libgtextutils-0.6.1-gcc6.patch |
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new file mode 100644 |
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index 00000000000..490b4be9b91 |
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--- /dev/null |
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+++ b/sci-biology/libgtextutils/files/libgtextutils-0.6.1-gcc6.patch |
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@@ -0,0 +1,22 @@ |
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+From d8bb66d26288293ebde7f8d88979c13c208ffce5 Mon Sep 17 00:00:00 2001 |
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+From: Assaf Gordon <assafgordon@×××××.com> |
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+Date: Mon, 14 Aug 2017 11:52:09 -0600 |
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+Subject: [PATCH] text_line_reader: adjust to new compilers |
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+ |
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+Fixes https://github.com/agordon/libgtextutils/issues/10 . |
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+--- |
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+ src/gtextutils/text_line_reader.cpp | 2 +- |
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+ 1 file changed, 1 insertion(+), 1 deletion(-) |
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+ |
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+diff --git a/src/gtextutils/text_line_reader.cpp b/src/gtextutils/text_line_reader.cpp |
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+index fede933..f0984d5 100644 |
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+--- a/src/gtextutils/text_line_reader.cpp |
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++++ b/src/gtextutils/text_line_reader.cpp |
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+@@ -44,6 +44,6 @@ bool TextLineReader::next_line() |
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+ if (input_stream.eof()) |
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+ return false; |
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+ |
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+- return input_stream ; |
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++ return input_stream.good() ; |
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+ } |
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+ |
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|
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diff --git a/sci-biology/libgtextutils/libgtextutils-0.6.1.ebuild b/sci-biology/libgtextutils/libgtextutils-0.6.1.ebuild |
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new file mode 100644 |
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index 00000000000..8f0455e5322 |
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--- /dev/null |
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+++ b/sci-biology/libgtextutils/libgtextutils-0.6.1.ebuild |
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@@ -0,0 +1,36 @@ |
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+# Copyright 1999-2018 Gentoo Foundation |
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+# Distributed under the terms of the GNU General Public License v2 |
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+ |
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+EAPI=6 |
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+ |
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+inherit autotools |
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+ |
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+DESCRIPTION="Gordon Text utils Library" |
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+HOMEPAGE="http://hannonlab.cshl.edu/fastx_toolkit/" |
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+SRC_URI="http://hannonlab.cshl.edu/fastx_toolkit/${P}.tar.bz2" |
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+ |
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+LICENSE="AGPL-3" |
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+SLOT="0/0" |
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+KEYWORDS="~amd64 ~x86" |
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+IUSE="" |
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+ |
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+PATCHES=( |
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+ "${FILESDIR}"/${P}-fix-build-system.patch |
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+ "${FILESDIR}"/${P}-gcc6.patch |
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+) |
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+ |
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+src_prepare() { |
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+ default |
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+ eautoreconf |
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+} |
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+ |
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+src_configure() { |
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+ econf --disable-static |
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+} |
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+ |
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+src_install() { |
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+ default |
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+ |
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+ # package installs .pc files |
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+ find "${D}" -name '*.la' -delete || die |
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+} |
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|
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diff --git a/sci-biology/libgtextutils/metadata.xml b/sci-biology/libgtextutils/metadata.xml |
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new file mode 100644 |
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index 00000000000..138cb7705c0 |
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--- /dev/null |
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+++ b/sci-biology/libgtextutils/metadata.xml |
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@@ -0,0 +1,12 @@ |
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+<?xml version="1.0" encoding="UTF-8"?> |
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+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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+<pkgmetadata> |
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+ <maintainer type="person"> |
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+ <email>mmokrejs@×××××××××××××××.cz</email> |
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+ <name>Martin Mokrejs</name> |
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+ </maintainer> |
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+ <maintainer type="project"> |
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+ <email>sci-biology@g.o</email> |
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+ <name>Gentoo Biology Project</name> |
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+ </maintainer> |
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+</pkgmetadata> |