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-rw-r--r--sci-biology/foldingathome/Manifest1
-rw-r--r--sci-biology/foldingathome/foldingathome-7.5.1-r3.ebuild140
-rw-r--r--sci-biology/psipred/Manifest1
-rw-r--r--sci-biology/psipred/psipred-3.4.ebuild56
-rw-r--r--sci-biology/rebase/Manifest7
-rw-r--r--sci-biology/rebase/rebase-1701.ebuild45
-rw-r--r--sci-biology/rebase/rebase-1702.ebuild45
-rw-r--r--sci-biology/rebase/rebase-1703.ebuild45
-rw-r--r--sci-biology/rebase/rebase-1704.ebuild45
-rw-r--r--sci-biology/rebase/rebase-1803.ebuild45
-rw-r--r--sci-biology/rebase/rebase-1806.ebuild45
-rw-r--r--sci-biology/rebase/rebase-1810.ebuild45
12 files changed, 0 insertions, 520 deletions
diff --git a/sci-biology/foldingathome/Manifest b/sci-biology/foldingathome/Manifest
index f1f3545d3368..590546fddbfe 100644
--- a/sci-biology/foldingathome/Manifest
+++ b/sci-biology/foldingathome/Manifest
@@ -1,2 +1 @@
-DIST fahclient_7.5.1-64bit-release.tar.bz2 3438239 BLAKE2B 69fb60cdd5356fe4f5ad1f106b67d078baf0394c5d3c474dff2f1ac840bcb31bfd9ca9a9c6112b9ee9497dcdc223732627a21c50b455e46c096a52587d5d229b SHA512 5f6f2f882d57fe53ad0a55b48f09fc3803af6aebbbf0e92be39477d4c4da92237d6edabec61dd8183678bdcfe3923ff9b0938647a77edc2c69ce8958defcfdf1
DIST fahclient_7.6.13-64bit-release.tar.bz2 3951134 BLAKE2B 2748b7c1987d166bdda08caf5ff2f331523ff519e24768cd7e111c6d3a93f54c10c88d8adbf733230b6c51547360135dbcb272e5d43fd06d01918481601382a1 SHA512 f39f2990d78d075e1061ceaff9453b703a000770a3422965b7b8a91d1814f8804837628d8a34be5afd914228ef787f699f2488523baad295a8d9c1e3bb4f35cf
diff --git a/sci-biology/foldingathome/foldingathome-7.5.1-r3.ebuild b/sci-biology/foldingathome/foldingathome-7.5.1-r3.ebuild
deleted file mode 100644
index cb7ce89a604b..000000000000
--- a/sci-biology/foldingathome/foldingathome-7.5.1-r3.ebuild
+++ /dev/null
@@ -1,140 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit versionator user systemd
-
-DESCRIPTION="Folding@Home is a distributed computing project for protein folding"
-HOMEPAGE="https://foldingathome.org/"
-SRC_URI="https://download.foldingathome.org/releases/public/release/fahclient/centos-6.7-64bit/v$(get_version_component_range 1-2)/fahclient_${PV}-64bit-release.tar.bz2"
-
-RESTRICT="mirror bindist strip"
-
-LICENSE="FAH-EULA-2014 FAH-special-permission"
-SLOT="0"
-KEYWORDS="~amd64"
-IUSE=""
-# Expressly listing all deps, as this is a binpkg and it is doubtful whether
-# i.e. uclibc or clang can provide what is necessary at runtime
-DEPEND="dev-util/patchelf"
-RDEPEND="app-arch/bzip2
- || (
- dev-libs/openssl-compat:1.0.0
- =dev-libs/openssl-1.0*:*
- )
- sys-devel/gcc
- sys-libs/glibc
- sys-libs/zlib
- acct-group/video
-"
-
-S="${WORKDIR}/fahclient_${PV}-64bit-release"
-
-QA_PREBUILT="opt/foldingathome/*"
-
-pkg_setup() {
- elog ""
- elog "Special permission is hereby granted to the Gentoo project to provide an"
- elog "automated installer package which downloads and installs the Folding@home client"
- elog "software. Permission is also granted for future Gentoo installer packages on the"
- elog "condition that they continue to adhere to all of the terms of the accompanying"
- elog "Folding@home license agreements and display this notice."
- elog "-- Vijay S. Pande, Stanford University, 07 May 2013"
- elog ""
- elog "(ref: http://foldingforum.org/viewtopic.php?f=16&t=22524&p=241992#p241992 )"
- elog ""
-
- enewgroup foldingathome
- enewuser foldingathome -1 -1 "${EPREFIX}"/opt/foldingathome video
-}
-
-src_install() {
- patchelf --set-rpath "${EPREFIX}/opt/foldingathome" FAHClient || die
- patchelf --set-rpath "${EPREFIX}/opt/foldingathome" FAHCoreWrapper || die
-
- dosym "../../usr/$(get_libdir)/libssl.so.1.0.0" /opt/foldingathome/libssl.so.10
- dosym "../../usr/$(get_libdir)/libcrypto.so.1.0.0" /opt/foldingathome/libcrypto.so.10
-
- exeinto /opt/foldingathome
- doexe {FAHClient,FAHCoreWrapper}
-
- insinto /opt/foldingathome
- doins sample-config.xml
-
- newconfd "${FILESDIR}"/7.3/folding-conf.d foldingathome
- cat <<EOF >"${T}"/fah-init
-#!/sbin/openrc-run
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-start_stop_daemon_args="--chdir \"${EPREFIX}/opt/foldingathome\""
-command="${EPREFIX}/opt/foldingathome/FAHClient"
-command_args="\${FOLD_OPTS}"
-command_user=foldingathome
-command_background=1
-pidfile="\${PIDFILE}"
-EOF
- newinitd "${T}"/fah-init foldingathome
-
- cat <<EOF >"${T}"/fah-init.service
-[Unit]
-Description=Folding@Home V7 Client
-Documentation=https://foldingathome.org
-
-[Service]
-Type=simple
-User=foldingathome
-Group=foldingathome
-Nice=19
-WorkingDirectory=${EPREFIX}/opt/foldingathome
-ExecStart=${EPREFIX}/opt/foldingathome/FAHClient --fork=false --pid=false --respawn=false --service=false
-NoNewPrivileges=yes
-PrivateTmp=yes
-ProtectControlGroups=yes
-ProtectSystem=full
-RestrictRealtime=true
-ProtectControlGroups=yes
-
-[Install]
-WantedBy=multi-user.target
-EOF
- systemd_newunit "${T}"/fah-init.service foldingathome.service
-
- fowners -R foldingathome:foldingathome /opt/foldingathome
-}
-
-pkg_postinst() {
- elog "To run Folding@home in the background at boot:"
- elog "(openrc)\trc-update add foldingathome default"
- elog "(systemd)\tsystemctl enable foldingathome"
- elog ""
- if [ ! -e "${EPREFIX}"/opt/foldingathome/config.xml ]; then
- elog "No config.xml file found -- please run"
- elog "emerge --config ${P} to configure your client, or specify"
- elog "all necessary runtime options in FOLD_OPTS within"
- elog "${EPREFIX}/etc/conf.d/foldingathome"
- elog ""
- fi
- if [[ -n ${REPLACING_VERSIONS} ]]; then
- elog "NOTE, the 'initfolding' helper script has been dropped, please"
- elog "use emerge --config ${P} or run FAHClient --configure directly"
- elog "and adjust file permissions and ownership yourself"
- elog ""
- fi
- elog "Please see ${EPREFIX}/opt/foldingathome/FAHClient --help for more details."
- einfo ""
- einfo "The original package maintainer encourages you to acquire a username and join team 36480."
- einfo "http://folding.stanford.edu/English/Download#ntoc2"
- einfo ""
-}
-
-pkg_postrm() {
- elog "Folding@home data files were not removed."
- elog "Remove them manually from ${EPREFIX}/opt/foldingathome"
-}
-
-pkg_config() {
- cd "${EPREFIX}"/opt/foldingathome || die
- su foldingathome -s /bin/sh -c "./FAHClient --configure"
-}
diff --git a/sci-biology/psipred/Manifest b/sci-biology/psipred/Manifest
index 3dfae4734db6..e16749782317 100644
--- a/sci-biology/psipred/Manifest
+++ b/sci-biology/psipred/Manifest
@@ -1,3 +1,2 @@
-DIST psipred3.4.tar.gz 1102416 BLAKE2B 9797f4181357bb26455253370aca39857c39a2c4bcd521b10a139784e6fd5dc9e14b76c11d99989ac33c3a01fb62807957f9969daa5ac9d928b0b4e83e943743 SHA512 1bc7ac41a213766139324540ba6952538f2890749ecf217d771b4ce59e25231857d38c237ea573674f11a82300750e9a3ff628ec0156864863a9528a144cd919
DIST psipred3.5.tar.gz 1101579 BLAKE2B 2fd86841cbc4bb86045b51f8283550832df8356ee88a6ef2c85281b5810debb23ac53652ddc5ffc9bd6f8e9e7248ce39ccee23400ff8fb49cd05b877d730b553 SHA512 a7b3f7d149f6a29cf0b48bdb900f6983d42af01132d8b54a7be88994d09fcf27dbe57115d41ec9654da6daf6898d5986d08fbdcefa3a4c81af0d358500cd40c2
DIST tdbdata.tar.gz 40241247 BLAKE2B c85a2fde9b29a14e1da27be1a7ea5fe1704f72b66cd79514dd50a3a0d2d8aab9341f7d5075f6d1896cefa54ca83948387b902b38780181777dc505a9a15b4aab SHA512 f96d7ffbb77e129251e27f62b7f099d944bacd14935e03fc52c9f0b262cce1ad477ad43520a93b407951fb8f5dd3ba2e27ff6b5ae8a637ec03bc02f8c7c3990c
diff --git a/sci-biology/psipred/psipred-3.4.ebuild b/sci-biology/psipred/psipred-3.4.ebuild
deleted file mode 100644
index 99233353d877..000000000000
--- a/sci-biology/psipred/psipred-3.4.ebuild
+++ /dev/null
@@ -1,56 +0,0 @@
-# Copyright 1999-2019 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit eutils prefix toolchain-funcs versionator
-
-#MY_P="${PN}$(delete_all_version_separators)"
-MY_P="${PN}${PV}"
-
-DESCRIPTION="Protein Secondary Structure Prediction"
-HOMEPAGE="https://bioinf.cs.ucl.ac.uk/psipred/"
-SRC_URI="
- http://bioinf.cs.ucl.ac.uk/downloads/${PN}/${MY_P}.tar.gz
- test? ( http://bioinfadmin.cs.ucl.ac.uk/downloads/psipred/old/data/tdbdata.tar.gz )"
-
-LICENSE="psipred"
-SLOT="0"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-IUSE="test"
-RESTRICT="!test? ( test )"
-
-RDEPEND="
- app-shells/tcsh
- sci-biology/ncbi-tools
- sci-biology/update-blastdb"
-DEPEND=""
-
-S="${WORKDIR}"/${PN}
-
-src_prepare() {
- rm -f bin/*
- epatch \
- "${FILESDIR}"/3.1-Makefile.patch \
- "${FILESDIR}"/3.1-path.patch \
- "${FILESDIR}"/3.2-fgets.patch
- eprefixify runpsipred*
- emake -C src clean
-}
-
-src_compile() {
- emake -C src CC=$(tc-getCC)
-}
-
-src_install() {
- emake -C src DESTDIR="${D}" install
- dobin runpsipred* bin/* BLAST+/runpsipred*
- insinto /usr/share/${PN}
- doins -r data
- dodoc README
-}
-
-pkg_postinst() {
- elog "Please use the update_blastdb.pl in order to"
- elog "maintain your own local blastdb"
-}
diff --git a/sci-biology/rebase/Manifest b/sci-biology/rebase/Manifest
index 175ef0c271ab..b383cb20278f 100644
--- a/sci-biology/rebase/Manifest
+++ b/sci-biology/rebase/Manifest
@@ -1,8 +1 @@
-DIST rebase-1701.tar.xz 120604368 BLAKE2B 1160f494b4e8650fb8ab9144756642377322a2bc1dd7a031e265a378b58e2487cc7d3f49ca9cf343a5c259cccb1d9ff7fda45a9b5744ae1f88799c603740a3af SHA512 1833db9d78508bbd5317f9b42b0e8129096f1695d5a14d5e2b6043bc94091a76ac404c576ad622be4e32c46aff7975a7ec3e36c3da71ce3ce1665868ee0d77cb
-DIST rebase-1702.tar.xz 117583312 BLAKE2B 19089d5767c35da22fb95bac7bc030ef593b159dda04d512b053a84c1cb4947679c8304bcbcb9388256e92cb0056d16b1b2035efac6eae84831d6fa95bd41a2a SHA512 3bba0738840b966a0a58123f265de1951428c599f3af9c581e1becec17ba3a93233a231de0673dbb2dc0bb82d54096e0eed43846967bf232f412bb785ce3b23f
-DIST rebase-1703.tar.xz 122252304 BLAKE2B 26afca990e300a5c471f55b1a168b1930212a347b70dd3224a51894bb701540a27a0384bd250caee8e0d0dd4886c6664ab74b20bcfb71fd42d1c73ebf2ce6be6 SHA512 838bf5e09073ff8520403d955a8195298def1d792d1fd3044e7c8896c6202a0340c1e96dbe80e85c5801cd3be3ed63f19488101cca02d46cdf5f1d0521ede796
-DIST rebase-1704.tar.xz 124351900 BLAKE2B bdbda714cc07f744b56c83b80a1b0f0a724a990b200c615458852910f282761aaf37a312a388ec7fee94a62ead47e01ddca8b205f2ad05d780a299e7547206f7 SHA512 0e4019d41ccbae86b8cb1f6dfa4c34d3fccbe084a330f04f2fdb774186e35c761655e1619d9a90d444ea3bab0910df1b60cf9a249ee31d66a254d28dd6b32cc7
-DIST rebase-1803.tar.xz 152581448 BLAKE2B 7907f0aee9e202f062f5ec4b5e4a112cd0fb3900b3d65dc57ffe4832c5aac088f50c2661f1b9c1bb8b57e7b4f6d453bec2899b460383d06b4e679da13e92aad2 SHA512 ab718e87c33c975bc6a93d3c6be130c9751612b744dc5451bcfde5c10d3d9d68ed4a4d921fff1f48063bfa2e9f3c8a016d4e5e0afa4eb7e4131511767608534b
-DIST rebase-1806.tar.xz 161844712 BLAKE2B 901167b502b85e88eaa9a8886c5ccac8bf1ec16a7736694b90f896bd4d87ae3792d09f6b154118a6063e30b94a5633b37a7811aefc1d39467d0043d887aeb64a SHA512 9c9c0ef89c8f8e43516c052a06395d61c423b53a79553ceccd992bf72872ece44696091c11c816213b93532aac54a476fe87475f4f67baaa87bc50f64e847d48
-DIST rebase-1810.tar.xz 173538148 BLAKE2B 4630d6a2addbb95e70cff73c8f81552545c81be2893dd9f38d19d8bc2fd7ecf4340441498187b654a05012d4dafbd5ad0634e3281f7aed1ee61618308a2325a5 SHA512 641ed61b14970e9804e98abab4e982aeaff378638730964ba162dffacea1c5869e4b1202462f422307d039e1bc6053403c801273f1ca9021c38f29e68a7bfae2
DIST rebase-1901.tar.xz 182532548 BLAKE2B 5ac8d26ab057bcd21dc9c57abeb226ac70cfabb156b48a51f820789626257be55bb21c9eb2099e6e55b1cfe3691480df0ec9b3f4b18b50ba2712b986c6d057b4 SHA512 1e3553e59c3520190754cb40bb0900e466d9ffd206e6460d3262a7d7d2af8aab0e28f3e60187665362824fa3730211c0e2119016ce5fed49095f9de46c7f25d4
diff --git a/sci-biology/rebase/rebase-1701.ebuild b/sci-biology/rebase/rebase-1701.ebuild
deleted file mode 100644
index fcc364ac8a89..000000000000
--- a/sci-biology/rebase/rebase-1701.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
diff --git a/sci-biology/rebase/rebase-1702.ebuild b/sci-biology/rebase/rebase-1702.ebuild
deleted file mode 100644
index ece29720c5fd..000000000000
--- a/sci-biology/rebase/rebase-1702.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
diff --git a/sci-biology/rebase/rebase-1703.ebuild b/sci-biology/rebase/rebase-1703.ebuild
deleted file mode 100644
index ece29720c5fd..000000000000
--- a/sci-biology/rebase/rebase-1703.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
diff --git a/sci-biology/rebase/rebase-1704.ebuild b/sci-biology/rebase/rebase-1704.ebuild
deleted file mode 100644
index ece29720c5fd..000000000000
--- a/sci-biology/rebase/rebase-1704.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
diff --git a/sci-biology/rebase/rebase-1803.ebuild b/sci-biology/rebase/rebase-1803.ebuild
deleted file mode 100644
index 2e4aa3870a2b..000000000000
--- a/sci-biology/rebase/rebase-1803.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
diff --git a/sci-biology/rebase/rebase-1806.ebuild b/sci-biology/rebase/rebase-1806.ebuild
deleted file mode 100644
index 2e4aa3870a2b..000000000000
--- a/sci-biology/rebase/rebase-1806.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
diff --git a/sci-biology/rebase/rebase-1810.ebuild b/sci-biology/rebase/rebase-1810.ebuild
deleted file mode 100644
index 2e4aa3870a2b..000000000000
--- a/sci-biology/rebase/rebase-1810.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MY_PV=${PV#1}
-
-DESCRIPTION="A restriction enzyme database"
-HOMEPAGE="https://rebase.neb.com"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
-
-SLOT="0"
-LICENSE="public-domain"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris ~x86-solaris"
-IUSE="emboss minimal"
-
-RDEPEND="emboss? ( >=sci-biology/emboss-5.0.0 )"
-DEPEND="${RDEPEND}"
-
-RESTRICT="binchecks strip"
-
-src_compile() {
- if use emboss; then
- echo; einfo "Indexing Rebase for usage with EMBOSS."
- mkdir REBASE || die
- EMBOSS_DATA="." rebaseextract -auto -infile withrefm.${MY_PV} \
- -protofile proto.${MY_PV} -equivalences \
- || die "Indexing Rebase failed."
- echo
- fi
-}
-
-src_install() {
- if ! use minimal; then
- insinto /usr/share/${PN}
- doins withrefm.${MY_PV} proto.${MY_PV}
- fi
- newdoc REBASE.DOC README
- if use emboss; then
- insinto /usr/share/EMBOSS/data/REBASE
- doins REBASE/embossre.{enz,ref,sup}
- insinto /usr/share/EMBOSS/data
- doins REBASE/embossre.equ
- fi
-}
generated by cgit v1.3.1 (git 2.54.0) at 2026-06-01 13:10:50 +0000