1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
|
# Copyright 1999-2017 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# @ECLASS: emboss-r2.eclass
# @MAINTAINER:
# sci-biology@gentoo.org
# jlec@gentoo.org
# ted.tanberry@gmail.com
# @AUTHOR:
# Original author: Author Olivier Fisette <ofisette@gmail.com>
# Next gen author: Justin Lecher <jlec@gentoo.org>
# Next gen author: Ted Tanberry <ted.tanberry@gmail.com>
# @SUPPORTED_EAPIS: 6
# @BLURB: Use this to easy install EMBOSS and EMBASSY programs (EMBOSS add-ons).
# @DESCRIPTION:
# The inheriting ebuild must set at least EAPI=6 and provide EBO_DESCRIPTION before the inherit line.
# KEYWORDS should be set. Additionally "(R|P)DEPEND"encies and other standard
# ebuild variables can be extended (FOO+=" bar").
#
# Example:
#
# EAPI=6
#
# EBO_DESCRIPTION="applications from the CBS group"
#
# inherit emboss-r2
# @ECLASS-VARIABLE: EBO_DESCRIPTION
# @DEFAULT_UNSET
# @DESCRIPTION:
# Should be set. Completes the generic description of the embassy module as follows:
#
# EMBOSS integrated version of ${EBO_DESCRIPTION}, e.g.
#
# "EMBOSS integrated version of applications from the CBS group"
#
# Defaults to the upstream name of the module.
if [[ ! ${_EMBOSS_R2} ]]; then
case ${EAPI:-0} in
6) ;;
*) die "EAPI=${EAPI} is not supported" ;;
esac
inherit autotools flag-o-matic
EXPORT_FUNCTIONS src_prepare src_configure src_install
HOMEPAGE="http://emboss.sourceforge.net/"
LICENSE="LGPL-2 GPL-2"
SLOT="0"
IUSE="mysql pdf png postgres static-libs X"
RDEPEND="
dev-libs/expat
dev-libs/libpcre:3
sci-libs/plplot:=
sys-libs/zlib
mysql? ( virtual/mysql )
pdf? ( media-libs/libharu:= )
png? ( media-libs/gd:2=[png] )
postgres? ( dev-db/postgresql:= )
X? ( x11-libs/libXt )"
if [[ ${PN} == embassy-* ]]; then
EMBASSY_PACKAGE=yes
# The EMBASSY package name, retrieved from the inheriting ebuild's name
EN=${PN:8}
# The full name and version of the EMBASSY package (excluding the Gentoo
# revision number)
EF="${EN^^}-${PV}"
[[ ${EBO_DESCRIPTION} ]] || die "EBO_DESCRIPTION was not set before inheriting emboss-r2.eclass"
DESCRIPTION="EMBOSS integrated version of ${EBO_DESCRIPTION}"
SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/${EF}.tar.gz -> embassy-${EN}-${PV}.tar.gz"
RDEPEND+=" >=sci-biology/emboss-6.6.0-r1[mysql=,pdf=,png=,postgres=,static-libs=,X=]"
S="${WORKDIR}/${EF}"
fi
DEPEND="${RDEPEND}"
# @ECLASS-VARIABLE: EBO_EAUTORECONF
# @DEFAULT_UNSET
# @DESCRIPTION:
# If set, run eautoreconf from autotools.eclass after applying patches
# in emboss-r2_src_prepare.
# @FUNCTION: emboss-r2_src_prepare
# @DESCRIPTION:
# Does the following things
#
# 1. Renames configure.in to configure.ac, if possible
# 2. Calls default_src_prepare (i.e.
# applies Gentoo and user patches in EAPI>=6)
# 3. If EBO_EAUTORECONF is set, run eautoreconf
#
emboss-r2_src_prepare() {
if [[ -e configure.in ]]; then
mv configure.{in,ac} || die
fi
default
[[ ${EBO_EAUTORECONF} ]] && eautoreconf
}
# @FUNCTION: emboss-r2_src_configure
# @DESCRIPTION:
# runs econf with following options.
#
# --enable-shared
# $(use_enable static-libs static)
# $(use_with X x)
# $(use_with png pngdriver)
# $(use_with pdf hpdf)
# $(use_with mysql mysql)
# $(use_with postgres postgresql)
# --enable-large
# --without-java
# --enable-systemlibs
#
# can be appended to like econf, e.g.
# emboss-r2_src_configure --disable-shared
emboss-r2_src_configure() {
local myconf=(
--enable-shared
$(use_enable static-libs static)
$(use_with X x)
$(use_with png pngdriver "${EPREFIX}/usr")
$(use_with pdf hpdf "${EPREFIX}/usr")
$(use_with mysql mysql "${EPREFIX}/usr/bin/mysql_config")
$(use_with postgres postgresql "${EPREFIX}/usr/bin/pg_config")
--enable-large
--without-java
--enable-systemlibs
)
[[ ${EMBASSY_PACKAGE} == yes ]] && \
append-cppflags "-I${EPREFIX}/usr/include/emboss"
econf "${myconf[@]}" "$@"
}
# @FUNCTION: emboss-r2_src_install
# @DESCRIPTION:
# Installs the package into the staging area and removes
# extraneous .la files, if USE="-static-libs"
emboss-r2_src_install() {
default
# delete .la files
if ! use static-libs; then
find "${D}" -name '*.la' -delete || die
fi
}
_EMBOSS_R2=1
fi
|
GitWeb