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author | Horea Christian <chr@chymera.eu> | 2020-09-27 00:31:16 -0400 |
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committer | Horea Christian <chr@chymera.eu> | 2020-09-27 00:31:16 -0400 |
commit | 0a98a3bfa820bf8ffd6d9258daa3a3469f15427a (patch) | |
tree | cfdae25e2ff954db78995e7c08f9b8b36c085b87 | |
parent | sci-biology/nistats: removed deprecated package (diff) | |
download | sci-0a98a3bfa820bf8ffd6d9258daa3a3469f15427a.tar.gz sci-0a98a3bfa820bf8ffd6d9258daa3a3469f15427a.tar.bz2 sci-0a98a3bfa820bf8ffd6d9258daa3a3469f15427a.zip |
sci-biology/discrover: removed deprecated package
Package-Manager: Portage-3.0.8, Repoman-3.0.1
Signed-off-by: Horea Christian <chr@chymera.eu>
-rw-r--r-- | sci-biology/discrover/Manifest | 1 | ||||
-rw-r--r-- | sci-biology/discrover/discrover-1.6.0.ebuild | 78 | ||||
-rw-r--r-- | sci-biology/discrover/discrover-9999.ebuild | 79 | ||||
-rw-r--r-- | sci-biology/discrover/metadata.xml | 28 |
4 files changed, 0 insertions, 186 deletions
diff --git a/sci-biology/discrover/Manifest b/sci-biology/discrover/Manifest deleted file mode 100644 index a293b8424..000000000 --- a/sci-biology/discrover/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST discrover-1.6.0.tar.gz 251285 BLAKE2B dfbcf92ef8d76b8da9c03cdf1d932fb2c67d1361813d918212352fe814cae46391fc3606da69819b28f822ad7f894290bc8c12cadfc135d10b78d1a49750f375 SHA512 78215b8c05da214928934b63f78753d707fbbe5de8cf7dbd03ddededfaf8cedf232b6769755718748735ff504e129ce02bdef3b29d0ece2b57e3745ab2e1669b diff --git a/sci-biology/discrover/discrover-1.6.0.ebuild b/sci-biology/discrover/discrover-1.6.0.ebuild deleted file mode 100644 index 5840283fd..000000000 --- a/sci-biology/discrover/discrover-1.6.0.ebuild +++ /dev/null @@ -1,78 +0,0 @@ -# Copyright 1999-2015 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=5 -inherit cmake-utils - -DESCRIPTION="A sequence motif discovery tool that uses discriminative learning" -HOMEPAGE="https://github.com/maaskola/discrover" -SRC_URI="https://github.com/maaskola/discrover/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="GPL-3+" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="+cairo dreme doc +lto misc_scripts +rmathlib tcmalloc" - -RDEPEND=" - dev-libs/boost - cairo? ( x11-libs/cairo ) - dreme? ( sci-biology/meme ) - rmathlib? ( dev-lang/R ) - tcmalloc? ( dev-util/google-perftools ) -" -DEPEND="${RDEPEND} - doc? ( - dev-texlive/texlive-latex - dev-texlive/texlive-latexextra - dev-texlive/texlive-latexrecommended - media-gfx/imagemagick - ) - lto? ( >=sys-devel/gcc-4.8:* ) -" -pkg_pretend() { - if use lto; then - if [[ $(gcc-major-version) -lt 4 ]] || ( [[ $(gcc-major-version) -eq 4 && $(gcc-minor-version) -lt 8 ]] ) ; then - eerror "Compilation with link-time optimization and GCC older than 4.8 is not supported." - eerror "Please either disable the USE flag 'lto' or use >=sys-devel/gcc-4.8." - die "Compiling with USE flag 'lto' is not supported with <sys-devel/gcc-4.8." - fi - fi -} -src_configure() { - local mycmakeargs=( - $(cmake-utils_use_with cairo CAIRO) - $(cmake-utils_use_with dreme DREME) - $(cmake-utils_use_with doc DOC) - $(cmake-utils_use_with lto LTO) - $(cmake-utils_use_with misc_scripts MISC_SCRIPTS) - $(cmake-utils_use_with rmathlib RMATHLIB) - $(cmake-utils_use_with tcmalloc TCMALLOC) - -DDOC_DIR="${EPREFIX}${PREFIX}/share/doc/${PF}" - ) - - unset R_HOME - - if use rmathlib ; then - echo - elog "Using statistical routines from standalone Rmathlib." - echo - fi - if use dreme ; then - echo - elog "Linking to DREME from the MEME suite." - echo - else - echo - elog "Not linking to DREME from the MEME suite (sci-biology/meme)." - elog "You will not be able to use DREME to find seeds." - echo - fi - - if use doc ; then - echo - elog "User manual available at /usr/share/doc/discrover/discrover-manual.pdf" - echo - fi - - cmake-utils_src_configure -} diff --git a/sci-biology/discrover/discrover-9999.ebuild b/sci-biology/discrover/discrover-9999.ebuild deleted file mode 100644 index 627f32059..000000000 --- a/sci-biology/discrover/discrover-9999.ebuild +++ /dev/null @@ -1,79 +0,0 @@ -# Copyright 1999-2015 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=5 -inherit cmake-utils git-r3 - -DESCRIPTION="A sequence motif discovery tool that uses discriminative learning" -HOMEPAGE="https://github.com/maaskola/discrover" -SRC_URI="" -EGIT_REPO_URI="https://github.com/maaskola/${PN}" - -LICENSE="GPL-3+" -SLOT="0" -KEYWORDS="~amd64 ~x86" -IUSE="+cairo dreme doc +lto misc_scripts +rmathlib tcmalloc" - -RDEPEND=" - dev-libs/boost - cairo? ( x11-libs/cairo ) - dreme? ( sci-biology/meme ) - rmathlib? ( dev-lang/R ) - tcmalloc? ( dev-util/google-perftools ) -" -DEPEND="${RDEPEND} - doc? ( - dev-texlive/texlive-latex - dev-texlive/texlive-latexextra - dev-texlive/texlive-latexrecommended - media-gfx/imagemagick - ) - lto? ( >=sys-devel/gcc-4.8:* ) -" -pkg_pretend() { - if use lto; then - if [[ $(gcc-major-version) -lt 4 ]] || ( [[ $(gcc-major-version) -eq 4 && $(gcc-minor-version) -lt 8 ]] ) ; then - eerror "Compilation with link-time optimization and GCC older than 4.8 is not supported." - eerror "Please either disable the USE flag 'lto' or use >=sys-devel/gcc-4.8." - die "Compiling with USE flag 'lto' is not supported with <sys-devel/gcc-4.8." - fi - fi -} -src_configure() { - local mycmakeargs=( - $(cmake-utils_use_with cairo CAIRO) - $(cmake-utils_use_with dreme DREME) - $(cmake-utils_use_with doc DOC) - $(cmake-utils_use_with lto LTO) - $(cmake-utils_use_with misc_scripts MISC_SCRIPTS) - $(cmake-utils_use_with rmathlib RMATHLIB) - $(cmake-utils_use_with tcmalloc TCMALLOC) - -DDOC_DIR="${EPREFIX}${PREFIX}/share/doc/${PF}" - ) - - unset R_HOME - - if use rmathlib ; then - echo - elog "Using statistical routines from standalone Rmathlib." - echo - fi - if use dreme ; then - echo - elog "Linking to DREME from the MEME suite." - echo - else - echo - elog "Not linking to DREME from the MEME suite (sci-biology/meme)." - elog "You will not be able to use DREME to find seeds." - echo - fi - - if use doc ; then - echo - elog "User manual available at /usr/share/doc/discrover/discrover-manual.pdf" - echo - fi - - cmake-utils_src_configure -} diff --git a/sci-biology/discrover/metadata.xml b/sci-biology/discrover/metadata.xml deleted file mode 100644 index 6f5916ea8..000000000 --- a/sci-biology/discrover/metadata.xml +++ /dev/null @@ -1,28 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>jonas@maaskola.de</email> - <name>Jonas Maaskola</name> - </maintainer> - <use> - <flag name="cairo"> -Use Cairo for sequence logo plotting capabilities -</flag> - <flag name="dreme"> -Enable usage of DREME from the MEME package for seeding -</flag> - <flag name="lto"> -Compile with link-time optimization (LTO) -</flag> - <flag name="misc_scripts"> -Install miscellaneous scripts -</flag> - <flag name="rmathlib"> -Link to the standalone Rmathlib for statistical routines -</flag> - </use> - <upstream> - <remote-id type="github">maaskola/discrover</remote-id> - </upstream> -</pkgmetadata> |