diff options
Diffstat (limited to 'sci-biology/dialign-tx')
-rw-r--r-- | sci-biology/dialign-tx/Manifest | 1 | ||||
-rw-r--r-- | sci-biology/dialign-tx/dialign-tx-1.0.2-r1.ebuild | 44 | ||||
-rw-r--r-- | sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch | 18 | ||||
-rw-r--r-- | sci-biology/dialign-tx/metadata.xml | 5 |
4 files changed, 68 insertions, 0 deletions
diff --git a/sci-biology/dialign-tx/Manifest b/sci-biology/dialign-tx/Manifest new file mode 100644 index 000000000000..de90a59afc93 --- /dev/null +++ b/sci-biology/dialign-tx/Manifest @@ -0,0 +1 @@ +DIST DIALIGN-TX_1.0.2.tar.gz 1765296 SHA256 fb3940a48a12875332752a298f619f0da62593189cd257d28932463c7cebcb8f SHA512 ff43f1f2900bdd12b7a8ba382a4d6ad68e6c2e6d7ceb1a65f0e571bb891cc2dc2661fb6ce698aaabf0e20c14565b5927ae0076a7170c8611679f936851a00c43 WHIRLPOOL 70565aa507f23a4f79affd8bda64e1b2698680e2288718c7518bd1d3782ca51ab747f8860e5513e7b1d480efd065702cc407c8137e96c47c3aad28ecdd345277 diff --git a/sci-biology/dialign-tx/dialign-tx-1.0.2-r1.ebuild b/sci-biology/dialign-tx/dialign-tx-1.0.2-r1.ebuild new file mode 100644 index 000000000000..c73d043742b8 --- /dev/null +++ b/sci-biology/dialign-tx/dialign-tx-1.0.2-r1.ebuild @@ -0,0 +1,44 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +inherit eutils multilib toolchain-funcs + +MY_P=DIALIGN-TX_${PV} + +DESCRIPTION="Greedy and progressive approaches for segment-based multiple sequence alignment" +HOMEPAGE="http://dialign-tx.gobics.de/" +SRC_URI="http://dialign-tx.gobics.de/${MY_P}.tar.gz" + +LICENSE="LGPL-2.1" +SLOT="0" +KEYWORDS="amd64 x86" +IUSE="" + +S=${WORKDIR}/${MY_P} + +src_prepare() { + sed -e "s/\$(CC) -o/\$(CC) \$(LDFLAGS) -o/" \ + -i source/Makefile || die #336533 + epatch "${FILESDIR}"/${P}-implicits.patch +} + +src_compile() { + emake -C source clean + emake -C source CC="$(tc-getCC)" \ + CPPFLAGS="" +} + +src_install() { + dobin "${S}"/source/dialign-tx + insinto /usr/$(get_libdir)/${PN}/conf + doins "${S}"/conf/* +} + +pkg_postinst() { + einfo "The configuration directory is" + einfo "${ROOT}usr/$(get_libdir)/${PN}/conf" + einfo "You will need to pass this to ${PN} on every run." +} diff --git a/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch new file mode 100644 index 000000000000..a8388d03232f --- /dev/null +++ b/sci-biology/dialign-tx/files/dialign-tx-1.0.2-implicits.patch @@ -0,0 +1,18 @@ +--- source/museq.c ++++ source/museq.c +@@ -38,6 +38,7 @@ + //extern void calc_weight(struct diag* dg, struct scr_matrix* smatrix, + // struct prob_dist *pdist); + //extern struct diag_col *create_diag_col(int seq_amount); ++extern void free_diag(struct diag* dg); + extern void free_diag_col(struct diag_col* dcol); + extern struct diag_col *find_all_diags(struct scr_matrix *smatrix, + struct prob_dist *pdist, +@@ -52,6 +53,7 @@ + + // alig.c + extern struct alignment* create_empty_alignment(struct seq_col *scol); ++extern void free_alignment(struct alignment *algn); + //extern char adapt_diag(struct alignment *algn, struct scr_matrix *smatrix, struct diag* dg); + extern int simple_aligner(struct seq_col *scol, struct diag_col *dcol, + struct scr_matrix* smatrix, diff --git a/sci-biology/dialign-tx/metadata.xml b/sci-biology/dialign-tx/metadata.xml new file mode 100644 index 000000000000..f17a827e3101 --- /dev/null +++ b/sci-biology/dialign-tx/metadata.xml @@ -0,0 +1,5 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <herd>sci-biology</herd> +</pkgmetadata> |