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commit: 1a7addf40ba3a1e97f3fefe12d9b71086f954c71 |
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Author: Horea Christian <chr <AT> chymera <DOT> eu> |
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AuthorDate: Sun Sep 27 22:35:48 2020 +0000 |
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Commit: Horea Christian <horea.christ <AT> gmail <DOT> com> |
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CommitDate: Sun Sep 27 22:43:20 2020 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=1a7addf4 |
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|
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sci-biology/Atlas2: removed discontinued package |
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|
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Package-Manager: Portage-3.0.8, Repoman-3.0.1 |
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Signed-off-by: Horea Christian <chr <AT> chymera.eu> |
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|
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sci-biology/Atlas2/Atlas2-1.4.3.ebuild | 40 ---------------------------------- |
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sci-biology/Atlas2/metadata.xml | 21 ------------------ |
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2 files changed, 61 deletions(-) |
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|
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diff --git a/sci-biology/Atlas2/Atlas2-1.4.3.ebuild b/sci-biology/Atlas2/Atlas2-1.4.3.ebuild |
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deleted file mode 100644 |
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index 2305fb15d..000000000 |
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--- a/sci-biology/Atlas2/Atlas2-1.4.3.ebuild |
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+++ /dev/null |
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@@ -1,40 +0,0 @@ |
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-# Copyright 1999-2017 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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-USE_RUBY="ruby22 ruby23 ruby24" |
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- |
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-inherit ruby-fakegem |
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- |
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-DESCRIPTION="Variant analysis tools from whole exome capture sequencing (WECS)" |
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-HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas2" |
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-SRC_URI="http://downloads.sourceforge.net/project/atlas2/Atlas2_v1.4.3.zip" |
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- |
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-LICENSE="BSD" |
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-SLOT="0" |
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-KEYWORDS="" |
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-IUSE="" |
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- |
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-DEPEND=" |
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- sci-biology/samtools:0 |
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- sci-biology/blat |
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- sci-biology/phrap |
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- sci-biology/ucsc-genome-browser" # that provides bigWig.h and jkweb.a, aka Jim Kent's src |
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-RDEPEND="${DEPEND}" |
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- |
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-S="${WORKDIR}"/all/"${PN}"_v"${PV}" |
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- |
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-src_compile(){ |
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- cd SOLiD-SNP-caller || die |
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- default |
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- |
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- cd ../vcfPrinter || die |
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- # TODO: install the *.rb files |
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- |
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- cd ../Atlas-Indel2 || die |
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- # TODO: install the *.rb and files in lib/ |
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- |
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- cd ../Atlas-SNP2 || die |
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- # TODO: install |
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-} |
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|
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diff --git a/sci-biology/Atlas2/metadata.xml b/sci-biology/Atlas2/metadata.xml |
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deleted file mode 100644 |
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index 7ce5225f5..000000000 |
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--- a/sci-biology/Atlas2/metadata.xml |
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+++ /dev/null |
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@@ -1,21 +0,0 @@ |
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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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- <longdescription> |
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-Atlas2 is a next-generation sequencing suite of variant analysis |
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-tools specializing in the separation of true SNPs and insertions |
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-and deletions (indels) from sequencing and mapping errors in Whole |
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-Exome Capture Sequencing (WECS) data. |
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-</longdescription> |
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- <upstream> |
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- <remote-id type="sourceforge">downloads</remote-id> |
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- </upstream> |
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-</pkgmetadata> |