1 |
commit: 213fbaee602b48bf23d3de3f55691dc6ea9fea07 |
2 |
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
3 |
AuthorDate: Tue Nov 27 13:49:25 2018 +0000 |
4 |
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
5 |
CommitDate: Tue Nov 27 13:59:03 2018 +0000 |
6 |
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=213fbaee |
7 |
|
8 |
sci-biology/seqtk: new package |
9 |
|
10 |
This package will be needed by sci-biology/tigmint |
11 |
|
12 |
Package-Manager: Portage-2.3.51, Repoman-2.3.11 |
13 |
Signed-off-by: Martin Mokrejs <mmokrejs <AT> fold.natur.cuni.cz> |
14 |
|
15 |
sci-biology/seqtk/files/seqtk-1.3_Makefile.patch | 27 ++++++++++++++++++++++++ |
16 |
sci-biology/seqtk/metadata.xml | 12 +++++++++++ |
17 |
sci-biology/seqtk/seqtk-1.3.ebuild | 22 +++++++++++++++++++ |
18 |
3 files changed, 61 insertions(+) |
19 |
|
20 |
diff --git a/sci-biology/seqtk/files/seqtk-1.3_Makefile.patch b/sci-biology/seqtk/files/seqtk-1.3_Makefile.patch |
21 |
new file mode 100644 |
22 |
index 000000000..bc0af18c5 |
23 |
--- /dev/null |
24 |
+++ b/sci-biology/seqtk/files/seqtk-1.3_Makefile.patch |
25 |
@@ -0,0 +1,27 @@ |
26 |
+diff --git a/Makefile b/Makefile |
27 |
+index 0a60ccc..1f3e429 100644 |
28 |
+--- a/Makefile |
29 |
++++ b/Makefile |
30 |
+@@ -1,6 +1,9 @@ |
31 |
+-CC=gcc |
32 |
+-CFLAGS=-g -Wall -O2 -Wno-unused-function |
33 |
+-BINDIR=/usr/local/bin |
34 |
++CC ?= gcc |
35 |
++CFLAGS ?= -g -Wall -O2 -Wno-unused-function |
36 |
++PREFIX ?= /usr/local |
37 |
++BINDIR ?= $(DESTDIR)$(PREFIX)/bin |
38 |
++INSTALL ?= install |
39 |
++MKDIR ?= mkdir |
40 |
+ |
41 |
+ all:seqtk |
42 |
+ |
43 |
+@@ -8,7 +11,8 @@ seqtk:seqtk.c khash.h kseq.h |
44 |
+ $(CC) $(CFLAGS) seqtk.c -o $@ -lz -lm |
45 |
+ |
46 |
+ install:all |
47 |
+- install seqtk $(BINDIR) |
48 |
++ $(MKDIR) -p $(BINDIR) |
49 |
++ $(INSTALL) seqtk $(BINDIR) |
50 |
+ |
51 |
+ clean: |
52 |
+ rm -fr gmon.out *.o ext/*.o a.out seqtk trimadap *~ *.a *.dSYM session* |
53 |
|
54 |
diff --git a/sci-biology/seqtk/metadata.xml b/sci-biology/seqtk/metadata.xml |
55 |
new file mode 100644 |
56 |
index 000000000..138cb7705 |
57 |
--- /dev/null |
58 |
+++ b/sci-biology/seqtk/metadata.xml |
59 |
@@ -0,0 +1,12 @@ |
60 |
+<?xml version="1.0" encoding="UTF-8"?> |
61 |
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
62 |
+<pkgmetadata> |
63 |
+ <maintainer type="person"> |
64 |
+ <email>mmokrejs@×××××××××××××××.cz</email> |
65 |
+ <name>Martin Mokrejs</name> |
66 |
+ </maintainer> |
67 |
+ <maintainer type="project"> |
68 |
+ <email>sci-biology@g.o</email> |
69 |
+ <name>Gentoo Biology Project</name> |
70 |
+ </maintainer> |
71 |
+</pkgmetadata> |
72 |
|
73 |
diff --git a/sci-biology/seqtk/seqtk-1.3.ebuild b/sci-biology/seqtk/seqtk-1.3.ebuild |
74 |
new file mode 100644 |
75 |
index 000000000..2024de85d |
76 |
--- /dev/null |
77 |
+++ b/sci-biology/seqtk/seqtk-1.3.ebuild |
78 |
@@ -0,0 +1,22 @@ |
79 |
+# Copyright 2018 Gentoo Authors |
80 |
+# Distributed under the terms of the GNU General Public License v2 |
81 |
+ |
82 |
+EAPI=7 |
83 |
+ |
84 |
+DESCRIPTION="Manipulate FASTA and FASTQ files" |
85 |
+HOMEPAGE="https://github.com/lh3/seqtk" |
86 |
+SRC_URI="https://github.com/lh3/seqtk/archive/v1.3.tar.gz -> ${P}.tar.gz" |
87 |
+ |
88 |
+LICENSE="MIT" |
89 |
+SLOT="0" |
90 |
+KEYWORDS="~amd64 ~x86" |
91 |
+IUSE="" |
92 |
+ |
93 |
+DEPEND="" |
94 |
+RDEPEND="${DEPEND}" |
95 |
+BDEPEND="" |
96 |
+PATCHES="${FILESDIR}"/"${P}"_Makefile.patch |
97 |
+ |
98 |
+src_install(){ |
99 |
+ emake install BINDIR="${ED}/usr/bin" |
100 |
+} |