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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-03-30 18:30:41 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-03-30 18:30:41 +0200 |
| commit | 4215f67e0da1eb2a2600f0b30a9e6032ddea342c (patch) | |
| tree | 74e4b25007e0878da13f404df1f9d2c236d10b84 | |
| parent | sci-biology/DisEMBL: added DEPENDency on tisean (diff) | |
| download | sci-4215f67e0da1eb2a2600f0b30a9e6032ddea342c.tar.gz sci-4215f67e0da1eb2a2600f0b30a9e6032ddea342c.tar.bz2 sci-4215f67e0da1eb2a2600f0b30a9e6032ddea342c.zip | |
sci-biology/exomiser-bin: improve ebuild, fix LICENSE, a 19GB files should be fetched manually but the ebuild should get access to it, unpack it and install as the files make grounding for a usable workspace
Package-Manager: portage-2.2.28
| -rw-r--r-- | sci-biology/exomiser-bin/Manifest | 4 | ||||
| -rw-r--r-- | sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild | 23 | ||||
| -rw-r--r-- | sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild | 31 |
3 files changed, 34 insertions, 24 deletions
diff --git a/sci-biology/exomiser-bin/Manifest b/sci-biology/exomiser-bin/Manifest index 6e50d183b..67ae9e248 100644 --- a/sci-biology/exomiser-bin/Manifest +++ b/sci-biology/exomiser-bin/Manifest @@ -1 +1,3 @@ -DIST exomiser-cli-7.0.0.BETA-distribution.zip 1243391234 SHA256 524f98ef38e1cf958fcaca3bada78f52f1053905c97fd0659d92eb470474df2b SHA512 68f9e71599ab42f4500da0559ab5d1893245a2908ece245425342a9e855258de539ba440ff5c56c9c22485f646483d4b517b1cf30ba985a1ac39e6e4047a01e5 WHIRLPOOL 6eebe7b9d54af91d851d50f00229885063e8d1f6dd2ecba4624ffec5e8898aa1465f2f4043dccda1af039557ab5e4b8467d6c78a689a8b63149b5f569ff96021 +DIST exomiser-bin.README 1445 SHA256 bf9b6ad3a0cd56fbe9d8155b5d671c1ce31b70742eef116a6158af4c9cebc488 SHA512 db27fbe1d7550ddde090b96928ff9c01049e2dbdee3927c73fff6810f5c5d921738866bf11424fddc14b5c955d79f7e9e6c6899191dc53e58d221388259800f8 WHIRLPOOL e0dff092281e5fae36c96f2af01d40e0a614acc4f638e80db2471743b0a61cff8629fa611a54271ba56db347ea416b6183a746294e29d7eb1f55db747f57942f +DIST exomiser-bin.README.md 9604 SHA256 262565653c4c4ede6872b6f2b174266ef39f05b4ef72048028f939a7df0050d6 SHA512 e6f9eb9114ef875e6e471eda1cb9118d725bd9ec4c1fbcc2cd0ee63069768816a98a4de03529f10f865837c8b9efe4e4c525b5e2471e44440f355a814bb82891 WHIRLPOOL 0ada5a7663fb98bdf778aa0c85f2b4d70eb0250934556d3001c0545776c4e23a74400688205042b60a8c5c0d965f6f15159279a262949ce2c3e355d67719eec4 +DIST exomiser-cli-7.2.1-distribution.zip 51146162 SHA256 4a89fcfe7ce80fe057b4db1cbb07e9fadc8f05d57bd3e95756b4d6e2a3b9148e SHA512 1d523e6e8de4b03f1271ff9eb29397f43829e0930934447a77339d5934836a27aeee5c74aeb5e0c9c7acb98e7db07eecd8abb8b163bd845b69e015c784c8ba86 WHIRLPOOL b6031d0887125ed4d257ec855ae074610b6d362f24a88f4b8157282c3a90db9c28913091a2bf2482e304cef1443871321d2b2a2d6ebb818c26a33ff7a1645816 diff --git a/sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild b/sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild deleted file mode 100644 index c58cabfae..000000000 --- a/sci-biology/exomiser-bin/exomiser-bin-7.0.0.ebuild +++ /dev/null @@ -1,23 +0,0 @@ -# Copyright 1999-2015 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Id$ - -EAPI=5 - -DESCRIPTION="Annotate VCF files from whole-exome sequencing (Jannovar, UCSC KnownGenes, hg19)" -HOMEPAGE="http://www.sanger.ac.uk/resources/software/exomiser" -SRC_URI="ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-${PV}.BETA-distribution.zip" -# 1.16GB ! - -LICENSE="GPL-3+" -SLOT="0" -KEYWORDS="" -IUSE="" - -DEPEND="sci-biology/Jannovar-bin" -RDEPEND="${DEPEND}" - -pkg_postinst(){ - einfo "Please download 3.7GB file from ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/h2_db_dumps/exomiser-${PV}.BETA.h2.db.gz" - einfo "and follow README.md" -} diff --git a/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild b/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild new file mode 100644 index 000000000..1346fd2ee --- /dev/null +++ b/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild @@ -0,0 +1,31 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +DESCRIPTION="Annotate VCF files and prioritize genome/exome mutations (Jannovar, UCSC KnownGenes, hg19)" +HOMEPAGE="http://www.sanger.ac.uk/science/tools/exomiser" +SRC_URI="ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-${PV}-distribution.zip + ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/GenomiserREADME -> ${PN}.README + ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/README.md -> ${PN}.README.md" +# 1.16GB ! + +LICENSE="AGPL-3+" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND="sci-biology/Jannovar-bin" +RDEPEND="${DEPEND}" + +src_install(){ + dodoc "${DISTDIR}"/${PN}.README "${DISTDIR}"/${PN}.README.md +} + +pkg_postinst(){ + einfo "Please download 3.7GB file from ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/h2_db_dumps/exomiser-${PV}.BETA.h2.db.gz" + einfo "and follow README.md" + einfo "The is also 19GB file ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-7.2.1-data.zip" + einfo "with test data" +} |