From 225240b5c35e442b575dd91b659c1b8171a88397 Mon Sep 17 00:00:00 2001 From: Martin Mokrejs Date: Fri, 10 Jan 2020 17:01:02 +0100 Subject: sci-biology/NGSEPcore-bin: binaries from upstream sci-biology/NGSEPplugin-bin: upstream binaries sci-biology/NGSEPplugin: add current HOMEPAGE Package-Manager: Portage-2.3.84, Repoman-2.3.20 Signed-off-by: Martin Mokrejs --- sci-biology/NGSEPcore-bin/Manifest | 4 +++ .../NGSEPcore-bin/NGSEPcore-bin-3.3.1.ebuild | 37 ++++++++++++++++++++++ sci-biology/NGSEPcore-bin/metadata.xml | 15 +++++++++ sci-biology/NGSEPplugin-bin/Manifest | 1 + .../NGSEPplugin-bin/NGSEPplugin-bin-3.3.1.ebuild | 28 ++++++++++++++++ sci-biology/NGSEPplugin-bin/metadata.xml | 15 +++++++++ sci-biology/NGSEPplugin/NGSEPplugin-3.3.1.ebuild | 5 +-- 7 files changed, 103 insertions(+), 2 deletions(-) create mode 100644 sci-biology/NGSEPcore-bin/Manifest create mode 100644 sci-biology/NGSEPcore-bin/NGSEPcore-bin-3.3.1.ebuild create mode 100644 sci-biology/NGSEPcore-bin/metadata.xml create mode 100644 sci-biology/NGSEPplugin-bin/Manifest create mode 100644 sci-biology/NGSEPplugin-bin/NGSEPplugin-bin-3.3.1.ebuild create mode 100644 sci-biology/NGSEPplugin-bin/metadata.xml (limited to 'sci-biology') diff --git a/sci-biology/NGSEPcore-bin/Manifest b/sci-biology/NGSEPcore-bin/Manifest new file mode 100644 index 000000000..b960f10df --- /dev/null +++ b/sci-biology/NGSEPcore-bin/Manifest @@ -0,0 +1,4 @@ +DIST NGSEPcore-bin-3.3.1_QuickStart.txt 23701 BLAKE2B 0b3433a771e0121d4f38362f331e87c2597b7cbca4b63f26504807b2a84de2a3636e711c6bdee86c575810d6aff44996cb75663739ff5e184542f7f598f546be SHA512 d1eff40ca54a1e9bbdbda59511eb9e63ace2b001024df4119f0751b2e00dcf9219eb2eaa6407b2ccd1df71cf93d9b8e39088a59b7a6200fd966502c1b680eedd +DIST NGSEPcore-bin-3.3.1_Tutorial.txt 17070 BLAKE2B 9af46173da8cb1b1746118d186da0794c0b9ad11d22109bdf96ed9df6d21df2495e8be3e5e75ef013a11922aa697ceb85ee280199eebbb2afadc180d3d86c0a6 SHA512 844138e0be2038d3f4656a55a8129819f08361cb6447a7fdb261b48c1f50e7aad1234079cbb01746bc7084d59c79589538883ecc0b0bb4bd8e07f61861ef80c1 +DIST NGSEPcore-bin-3.3.1_UserManual.pdf 29071950 BLAKE2B fd16b44e3668f61013772965378bf4fa604b2467839810392d26a27e1a6e52f961cecc5097728bb67d10b68556bd406ec044b439c5ad1b3e614bfc7866afed43 SHA512 6d697f6945bdecb4f30712d3ae94615c85180a53750ba92357f81bf060b3f5bec3f6d1a03115c1a3791f5bf050b115cd09fd8729d885d4ec34b10024082ebb3c +DIST NGSEPcore_3.3.1.jar 2288599 BLAKE2B 16e1754349d312c9172b80d264e480835f9784452ed022d39931756d650971247781abee179afe9b73cef6413ab0604c7232b38c65b0ad98d0d5f60a02cc7e91 SHA512 4bb938b0b22f77703d8567f3e95b2dd1df6d56edae522521cada8b72e9cd6ac265b30c70f3c480107aa17210b9d5b8e43a14617137bb3f1333c1ce70f5cc5439 diff --git a/sci-biology/NGSEPcore-bin/NGSEPcore-bin-3.3.1.ebuild b/sci-biology/NGSEPcore-bin/NGSEPcore-bin-3.3.1.ebuild new file mode 100644 index 000000000..8758da3ac --- /dev/null +++ b/sci-biology/NGSEPcore-bin/NGSEPcore-bin-3.3.1.ebuild @@ -0,0 +1,37 @@ +# Copyright 1999-2020 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +inherit java-pkg-2 java-ant-2 + +DESCRIPTION="NGSEP (CNV and indel discovery)" +HOMEPAGE="https://sourceforge.net/p/ngsep/wiki/Home + https://github.com/NGSEP/NGSEPcore" +SRC_URI="https://sourceforge.net/projects/ngsep/files/Library/NGSEPcore_3.3.1.jar + https://sourceforge.net/projects/ngsep/files/training/UserManualNGSEP_V330.pdf -> ${P}_UserManual.pdf + https://sourceforge.net/projects/ngsep/files/training/Tutorial.txt -> ${P}_Tutorial.txt + https://sourceforge.net/projects/ngsep/files/training/QuickStart.txt -> ${P}_QuickStart.txt" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND=" + dev-java/htsjdk" +# dev-java/jsci-bin +RDEPEND="${DEPEND}" + +S="${WORKDIR}" + +src_unpack(){ + echo +} + +src_install(){ + java-pkg_dojar "${DISTDIR}"/*.jar + dodoc "${DISTDIR}"/${P}_UserManual.pdf \ + "${DISTDIR}"/${P}_Tutorial.txt \ + "${DISTDIR}"/${P}_QuickStart.txt +} diff --git a/sci-biology/NGSEPcore-bin/metadata.xml b/sci-biology/NGSEPcore-bin/metadata.xml new file mode 100644 index 000000000..642261079 --- /dev/null +++ b/sci-biology/NGSEPcore-bin/metadata.xml @@ -0,0 +1,15 @@ + + + + + mmokrejs@fold.natur.cuni.cz + Martin Mokrejs + + + sci-biology@gentoo.org + Gentoo Biology Project + + + ngsep + + diff --git a/sci-biology/NGSEPplugin-bin/Manifest b/sci-biology/NGSEPplugin-bin/Manifest new file mode 100644 index 000000000..32b7ad470 --- /dev/null +++ b/sci-biology/NGSEPplugin-bin/Manifest @@ -0,0 +1 @@ +DIST NGSEPplugin_3.3.1.201903140636.jar 4265549 BLAKE2B 016142b652f8cea94e6206d014b4f193b8b59dd277ce82d5a927f18b6826e4c702f5594c9379db5664a8b4e3ba5aac87c6e100ec1c0990c349cea3ca178d5321 SHA512 b0e008cb1fcca6925be681679f64f6dc8f4de5362d126ebce637f9ac533b7e90123d9167b73050971623cd3b512df66fbab79f1df0e4bfef0c4c9651de157844 diff --git a/sci-biology/NGSEPplugin-bin/NGSEPplugin-bin-3.3.1.ebuild b/sci-biology/NGSEPplugin-bin/NGSEPplugin-bin-3.3.1.ebuild new file mode 100644 index 000000000..f2a452138 --- /dev/null +++ b/sci-biology/NGSEPplugin-bin/NGSEPplugin-bin-3.3.1.ebuild @@ -0,0 +1,28 @@ +# Copyright 1999-2020 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +inherit java-pkg-2 java-ant-2 + +DESCRIPTION="NGSEP with Eclipse Plugin (CNV and indel discovery)" +HOMEPAGE="https://sourceforge.net/p/ngsep/wiki/Home + https://github.com/NGSEP/NGSEPplugin" +SRC_URI="https://sourceforge.net/projects/ngsep/files/OnlyPlugin/NGSEPplugin_3.3.1.201903140636.jar" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND=" + >=virtual/jdk-1.7:* + sci-biology/NGSEPcore-bin" +RDEPEND="${DEPEND} + >=virtual/jre-1.7:*" + +S="${WORKDIR}" + +src_install(){ + java-pkg_dojar "${DISTDIR}"/*.jar +} diff --git a/sci-biology/NGSEPplugin-bin/metadata.xml b/sci-biology/NGSEPplugin-bin/metadata.xml new file mode 100644 index 000000000..642261079 --- /dev/null +++ b/sci-biology/NGSEPplugin-bin/metadata.xml @@ -0,0 +1,15 @@ + + + + + mmokrejs@fold.natur.cuni.cz + Martin Mokrejs + + + sci-biology@gentoo.org + Gentoo Biology Project + + + ngsep + + diff --git a/sci-biology/NGSEPplugin/NGSEPplugin-3.3.1.ebuild b/sci-biology/NGSEPplugin/NGSEPplugin-3.3.1.ebuild index ec13ffa46..736121efb 100644 --- a/sci-biology/NGSEPplugin/NGSEPplugin-3.3.1.ebuild +++ b/sci-biology/NGSEPplugin/NGSEPplugin-3.3.1.ebuild @@ -1,4 +1,4 @@ -# Copyright 1999-2019 Gentoo Authors +# Copyright 1999-2020 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 @@ -6,7 +6,8 @@ EAPI=7 inherit java-pkg-2 java-ant-2 DESCRIPTION="NGSEP with Eclipse Plugin (CNV and indel discovery)" -HOMEPAGE="https://sourceforge.net/p/ngsep/wiki/Home" +HOMEPAGE="https://sourceforge.net/p/ngsep/wiki/Home + https://github.com/NGSEP/NGSEPplugin" SRC_URI="https://sourceforge.net/projects/ngsep/files/SourceCode/NGSEPplugin_${PV}.tar.gz" LICENSE="GPL-3" -- cgit v1.2.3-65-gdbad