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authorDavid Seifert <soap@gentoo.org>2018-01-01 13:42:45 +0100
committerDavid Seifert <soap@gentoo.org>2018-01-01 13:42:45 +0100
commita41c01197596738c1f3af00bda7e3cbf52bc9f1c (patch)
tree1fd77f6af6c781c6092885e0150890f9e92d6602 /sci-biology/fasta
parentmedia-gfx/maim: Add live ebuild (diff)
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sci-biology/fasta: Remove old
Package-Manager: Portage-2.3.19, Repoman-2.3.6
Diffstat (limited to 'sci-biology/fasta')
-rw-r--r--sci-biology/fasta/Manifest1
-rw-r--r--sci-biology/fasta/fasta-35.4.10.ebuild57
-rw-r--r--sci-biology/fasta/files/35.4.10-ldflags.patch26
3 files changed, 0 insertions, 84 deletions
diff --git a/sci-biology/fasta/Manifest b/sci-biology/fasta/Manifest
index 847e1f925c0..800c5b2628b 100644
--- a/sci-biology/fasta/Manifest
+++ b/sci-biology/fasta/Manifest
@@ -1,2 +1 @@
-DIST fasta-35.4.10.tar.gz 618971 BLAKE2B cbc413c13f7d5151add9886eb0fbe1d55d9b1847f406ff8fe614e729c6c3ab155711b6c38a2085eabd3f27506562a98ca8d9f1409525f27fe091b30f3a1e840d SHA512 f04268f0eea59cd40985c86597ab68bef40ee28e6ca914a7182c0edfe943ec8fb2a860558f422f210a4c03f3c34f36c677bd3971bc240cb87695826c755f5a47
DIST fasta-36.3.5e.tar.gz 943763 BLAKE2B 6234d0aee76af6614e6d25ebcfbdfae080db5bc5adf611aeb6edc53ed7c6cb6cef257bf852ed39bc286527cec4175c251765ce23ea5ff39d12ff8947dba97ac6 SHA512 ddfcae36dadd7e2ed5c8c8c0bda2eed077e9f6cd55e4ebf507690671af156358e9da4e7cb1406d2b8713c326c54a9d829fc25e668b16dfa6df48d18e3a009812
diff --git a/sci-biology/fasta/fasta-35.4.10.ebuild b/sci-biology/fasta/fasta-35.4.10.ebuild
deleted file mode 100644
index 8cad4d2a8b0..00000000000
--- a/sci-biology/fasta/fasta-35.4.10.ebuild
+++ /dev/null
@@ -1,57 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI="2"
-
-inherit eutils flag-o-matic toolchain-funcs
-
-DESCRIPTION="FASTA is a DNA and Protein sequence alignment software package"
-HOMEPAGE="http://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml"
-SRC_URI="http://faculty.virginia.edu/wrpearson/${PN}/${PN}3/${P}.tar.gz"
-
-LICENSE="fasta"
-SLOT="0"
-KEYWORDS="amd64 ~ppc x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos"
-IUSE="debug cpu_flags_x86_sse2 test"
-
-DEPEND="test? ( app-shells/tcsh )"
-RDEPEND=""
-
-src_prepare() {
- CC_ALT=
- CFLAGS_ALT=
- ALT=
-
- use debug && append-flags -DDEBUG
-
- if [[ $(tc-getCC) == *icc* ]]; then
- CC_ALT=icc
- ALT="${ALT}_icc"
- else
- CC_ALT=$(tc-getCC)
- use x86 && ALT="32"
- use amd64 && ALT="64"
- fi
-
- if use cpu_flags_x86_sse2 ; then
- ALT="${ALT}_sse2"
- append-flags -msse2
- [[ $(tc-getCC) == *icc* ]] || append-flags -ffast-math
- fi
-
- export CC_ALT="${CC_ALT}"
- export ALT="${ALT}"
-
- epatch "${FILESDIR}"/${PV}-ldflags.patch
-}
-
-src_compile() {
- cd src
- emake -f ../make/Makefile.linux${ALT} CC="${CC_ALT} ${CFLAGS}" HFLAGS="${LDFLAGS} -o" all || die
-}
-
-src_install() {
- dobin bin/* || die
- doman doc/{prss3.1,fasta35.1,pvcomp.1,fasts3.1,fastf3.1,ps_lav.1,map_db.1} || die
- dodoc FASTA_LIST README doc/{README.versions,readme*,fasta*,changes*} || die
-}
diff --git a/sci-biology/fasta/files/35.4.10-ldflags.patch b/sci-biology/fasta/files/35.4.10-ldflags.patch
deleted file mode 100644
index c3b7a9b5690..00000000000
--- a/sci-biology/fasta/files/35.4.10-ldflags.patch
+++ /dev/null
@@ -1,26 +0,0 @@
-diff --git a/make/Makefile.pcom b/make/Makefile.pcom
-index a808667..405be95 100644
---- a/make/Makefile.pcom
-+++ b/make/Makefile.pcom
-@@ -274,16 +274,16 @@ print_pssm : print_pssm.c getseq.c karlin.c apam.c
- $(CC) -o print_pssm $(CFLAGS) print_pssm.c getseq.c karlin.c apam.c $(LIB_M)
-
- map_db : map_db.c uascii.h ncbl2_head.h
-- $(CC) $(CFLAGS) -o $(BIN)/map_db map_db.c
-+ $(CC) $(CFLAGS) $(HFLAGS) $(BIN)/map_db map_db.c
-
- list_db : list_db.c
-- $(CC) $(CFLAGS) -o $(BIN)/list_db list_db.c
-+ $(CC) $(CFLAGS) $(HFLAGS) $(BIN)/list_db list_db.c
-
- lav2ps : lav2plt.o lavplt_ps.o
-- $(CC) -DUNIX -o $(BIN)/lav2ps lav2plt.o lavplt_ps.o -lm
-+ $(CC) -DUNIX $(HFLAGS) $(BIN)/lav2ps lav2plt.o lavplt_ps.o -lm
-
- lav2svg : lav2plt.o lavplt_svg.o
-- $(CC) -DUNIX -o $(BIN)/lav2svg lav2plt.o lavplt_svg.o -lm
-+ $(CC) -DUNIX $(HFLAGS) $(BIN)/lav2svg lav2plt.o lavplt_svg.o -lm
-
- res_stats : res_stats.o scale_se.o
-- $(CC) -DUNIX -o $(BIN)/res_stats res_stats.o scale_se.o -lm
-+ $(CC) -DUNIX $(HFLAGS) $(BIN)/res_stats res_stats.o scale_se.o -lm