diff options
Diffstat (limited to 'sci-biology/recon')
| -rw-r--r-- | sci-biology/recon/files/recon-1.08-Wimplicit-function-declaration.patch | 20 | ||||
| -rw-r--r-- | sci-biology/recon/metadata.xml | 2 | ||||
| -rw-r--r-- | sci-biology/recon/recon-1.08-r1.ebuild (renamed from sci-biology/recon/recon-1.08.ebuild) | 16 |
3 files changed, 29 insertions, 9 deletions
diff --git a/sci-biology/recon/files/recon-1.08-Wimplicit-function-declaration.patch b/sci-biology/recon/files/recon-1.08-Wimplicit-function-declaration.patch new file mode 100644 index 000000000000..9eba16e4a410 --- /dev/null +++ b/sci-biology/recon/files/recon-1.08-Wimplicit-function-declaration.patch @@ -0,0 +1,20 @@ +--- a/src/bolts.h ++++ b/src/bolts.h +@@ -3,6 +3,7 @@ + #include <stdio.h> + #include <math.h> + #include <stdlib.h> ++#include <stdint.h> + + + #define NAME_LEN 50 +--- a/src/seqlist.h ++++ b/src/seqlist.h +@@ -1,6 +1,7 @@ + + #include "bolts.h" + #include "string.h" ++#include <ctype.h> + + #ifndef _seqlist_h + #define _seqlist_h diff --git a/sci-biology/recon/metadata.xml b/sci-biology/recon/metadata.xml index 959160fe46b1..ccdff086e20b 100644 --- a/sci-biology/recon/metadata.xml +++ b/sci-biology/recon/metadata.xml @@ -1,5 +1,5 @@ <?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> <pkgmetadata> <maintainer type="project"> <email>sci-biology@gentoo.org</email> diff --git a/sci-biology/recon/recon-1.08.ebuild b/sci-biology/recon/recon-1.08-r1.ebuild index a96403c812be..dd79dd43c496 100644 --- a/sci-biology/recon/recon-1.08.ebuild +++ b/sci-biology/recon/recon-1.08-r1.ebuild @@ -1,31 +1,31 @@ -# Copyright 1999-2017 Gentoo Foundation +# Copyright 1999-2022 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=6 +EAPI=8 inherit toolchain-funcs DESCRIPTION="Automated de novo identification of repeat families from genomic sequences" HOMEPAGE="http://www.repeatmasker.org/RepeatModeler.html" SRC_URI="http://www.repeatmasker.org/${P^^}.tar.gz" +S="${WORKDIR}/${P^^}" LICENSE="GPL-2" SLOT="0" -IUSE="examples" KEYWORDS="~amd64 ~x86" +IUSE="examples" RDEPEND="dev-lang/perl" -S=${WORKDIR}/${P^^} - PATCHES=( "${FILESDIR}"/${PN}-1.08-buffer-overflow.patch "${FILESDIR}"/${PN}-1.08-perl-shebangs.patch + "${FILESDIR}"/${PN}-1.08-Wimplicit-function-declaration.patch ) src_prepare() { default - sed -i "s|$path = \"\";|$path = \"${EPREFIX}/usr/libexec/${PN}\";|" scripts/recon.pl || die + sed -i "s|$path = \"\";|$path = \"${EPREFIX}/usr/libexec/recon\";|" scripts/recon.pl || die } src_compile() { @@ -35,13 +35,13 @@ src_compile() { src_install() { dobin scripts/* - exeinto /usr/libexec/${PN} + exeinto /usr/libexec/recon doexe src/{edgeredef,eledef,eleredef,famdef,imagespread} newdoc {00,}README if use examples; then - insinto /usr/share/${PN} + insinto /usr/share/recon doins -r Demos fi } |