diff options
| author |   Andrew Ammerlaan <andrewammerlaan@riseup.net> | 2021-01-19 16:05:45 +0100 |
|---|---|---|
| committer | Andrew Ammerlaan <andrewammerlaan@riseup.net> | 2021-01-19 16:06:01 +0100 |
| commit | 58757ad4c94dc19558955d6588a5f4b6ba7e195d (patch) | |
| tree | 83a54e001aee0f3c50b099798211a709af32e756 /sci-biology/beagle | |
| parent | sci-biology/blue: remove pack, upstream gone (diff) | |
| download | sci-58757ad4c94dc19558955d6588a5f4b6ba7e195d.tar.gz sci-58757ad4c94dc19558955d6588a5f4b6ba7e195d.tar.bz2 sci-58757ad4c94dc19558955d6588a5f4b6ba7e195d.zip | |
sci-biology/beagle: version bump, fix fetch
Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
Diffstat (limited to 'sci-biology/beagle')
| -rw-r--r-- | sci-biology/beagle/Manifest | 5 | ||||
| -rw-r--r-- | sci-biology/beagle/beagle-4.0.ebuild | 22 | ||||
| -rw-r--r-- | sci-biology/beagle/beagle-5.1.ebuild | 30 |
3 files changed, 32 insertions, 25 deletions
diff --git a/sci-biology/beagle/Manifest b/sci-biology/beagle/Manifest index a4cb8d549..0b0fcc4be 100644 --- a/sci-biology/beagle/Manifest +++ b/sci-biology/beagle/Manifest @@ -1,4 +1,3 @@ DIST beagle-example.sh 976 BLAKE2B 36b38e68f18f4b1a488176d61a863c6d7312a3a89146ea8a15994db6dcf05afc74b7d5a207c72f3d49891a72a8b7f7199e7e7bfd0be124408db109503b7186d2 SHA512 db07b8e7753b1fa7b314301227fd4da3f80e2f5ea47357cb7f17d1ab1ad11b498ff763d82dc034a3cdc914071285e8186dcc85d0e829b537a9407ce11a6e4e80 -DIST beagle-release_notes.txt 1208 BLAKE2B 79340af75cd37c8d589d5eccb16b450d43ea6db94303a8686c135c3e699426d6711596282e392c1e718d76087c0203975e738de346392c48e3468ecd73616dbc SHA512 fa347608eb76bea7ba65d8aa109a578ba43900e29b6854160b58acb2c78a19999542901e5f9ebe703d2feb5e46b60e318c23d78a5eb63ad6e7df1d9850902067 -DIST beagle.03Mar15.pdf 655574 BLAKE2B 05839803105d07fd0b1c29a678b11e47596b02888bb743edece06e3e2faf1cf9c9fff839989e460b2966e8b1fb46cd3a5b2fda3ce3ddb2532394c4e2b61304f1 SHA512 78dfcffae1bdb29b7a9741d9a3610905222030d91ab74b7be09f46c9fc3742333f1f26d330c9fe532d9127771de2c36ffda229d8603b082478b5b90528c7a649 -DIST beagle.r1399.src.zip 307214 BLAKE2B a9adb8265aaad3df723d372107d6417a06778261e4be819f1840002643c4be2b0d246e42f30309fff7d4a9d7df30807bc8b80e9c04278d7d7d363a3d3535142e SHA512 b22b6ba3c67e01cf3e7c332723af781d32c3b2b9dad15b2eb1e1f47a216ff89911f89617eb95214723554059314dc312271a5320677937df48c7c4f3bb889253 +DIST beagle.18May20.d20.jar 276715 BLAKE2B 21177856bd948536c0b22649f8e1c600814a5a2446a72e1c1608b848fb9ed9206660e4a3f57982a728d238d51804b85e9edac97482a55d42a97aaa48d729b49e SHA512 30210e594ce4dce48eb2482e593a01b2476946aefff267fb73a38fb39d4a198091a09a32444b089c678aa232b9369ca47ecedde41adf026e62714319dbcbc9de +DIST beagle_5.1_08Nov19.pdf 701913 BLAKE2B fa2c7f5d54bd9353ae047d53dab3f6e8e32e6ad0ceb33d8b6e8da6bd795ae12dd51f10d28b6eaf357c6aa14d07a7800fa2ea8d159348996a58780a1dac76b7f7 SHA512 a1003bbf46cbe173c661b86cf7592e5b8861d65a729b8e7a3f11be56a4ece9e97156ee0c1624083bfc5ea658c9866b2286118d1eab31eeffe2d36850edf1d81b diff --git a/sci-biology/beagle/beagle-4.0.ebuild b/sci-biology/beagle/beagle-4.0.ebuild deleted file mode 100644 index 61a9463c6..000000000 --- a/sci-biology/beagle/beagle-4.0.ebuild +++ /dev/null @@ -1,22 +0,0 @@ -# Copyright 1999-2015 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=5 - -inherit java-pkg-2 java-ant-2 - -DESCRIPTION="Genotype calling/phasing, imputation of ungenotyped markers" -HOMEPAGE="http://faculty.washington.edu/browning/beagle/beagle.html" -SRC_URI="http://faculty.washington.edu/browning/beagle/beagle.r1399.src.zip - http://faculty.washington.edu/browning/beagle/beagle.03Mar15.pdf - http://faculty.washington.edu/browning/beagle/run.beagle.r1399.example -> ${PN}-example.sh - http://faculty.washington.edu/browning/beagle/release_notes -> ${PN}-release_notes.txt" - -LICENSE="GPL-3+" -SLOT="0" -KEYWORDS="" -IUSE="" - -DEPEND=">=virtual/jdk-1.7:*" -RDEPEND="${DEPEND} - sci-biology/conform-gt" diff --git a/sci-biology/beagle/beagle-5.1.ebuild b/sci-biology/beagle/beagle-5.1.ebuild new file mode 100644 index 000000000..38b04921c --- /dev/null +++ b/sci-biology/beagle/beagle-5.1.ebuild @@ -0,0 +1,30 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +inherit java-pkg-2 + +DESCRIPTION="Genotype calling/phasing, imputation of ungenotyped markers" +HOMEPAGE="https://faculty.washington.edu/browning/beagle/beagle.html" +SRC_URI=" + https://faculty.washington.edu/browning/beagle/beagle.18May20.d20.jar + https://faculty.washington.edu/browning/beagle/beagle_${PV}_08Nov19.pdf + https://faculty.washington.edu/browning/beagle/run.beagle.18May20.d20.example -> ${PN}-example.sh +" + +LICENSE="GPL-3+" +SLOT="0" +KEYWORDS="~amd64" + +DEPEND=">=virtual/jdk-1.8:*" +RDEPEND="${DEPEND} + sci-biology/conform-gt" + +S="${WORKDIR}" + +src_install() { + java-pkg_newjar "${DISTDIR}/beagle.18May20.d20.jar" "${PN}.jar" + dodoc "${DISTDIR}/beagle_${PV}_08Nov19.pdf" + dodoc "${DISTDIR}/${PN}-example.sh" +} |