blob: cacec45675aac98bd897e9fd033c4f51c92289b9 (
plain) (
blame)
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
|
# ex:ts=8
# New ports collection makefile for: embassy
# Date created: 1.November.2004
# Whom: Fernan Aguero <fernan@iib.unsamn.edu.ar>
#
# $FreeBSD$
#
PORTNAME= embassy
PORTVERSION= 3.0.0
PORTREVISION= 2
CATEGORIES= biology
MASTER_SITES= ftp://emboss.open-bio.org/pub/EMBOSS/ \
ftp://ftp.uk.embnet.org/pub/EMBOSS/ \
ftp://ftp.es.embnet.org/pub/software/emboss/EMBOSS/ \
ftp://ftp.ebi.ac.uk/pub/software/unix/EMBOSS/
DIST_SUBDIR= emboss
MAINTAINER= fernan@iib.unsam.edu.ar
COMMENT= A collection of contributed EMBOSS applications
LIB_DEPENDS= nucleus.3:${PORTSDIR}/biology/emboss
PREFIX?= ${LOCALBASE}/emboss
NO_MTREE= yes
USE_SUBMAKE= yes
USE_ICONV= yes
USE_GMAKE= yes
GNU_CONFIGURE= yes
USE_MOTIF= yes
OPTIONS= DOMAINATRIX "Protein domain apps" on \
DOMALIGN "Protein domain apps" on \
DOMSEARCH "Protein domain apps" on \
SIGNATURE "Protein domain apps" on \
STRUCTURE "Protein domain apps" on \
EMNU "EMBOSS simple menu" on \
ESIM4 "Align cDNA/EST to genome" on \
HMMER "HMM alignment and searches" on \
MEME "Motif detection" on \
MSE "A multiple sequence screen editor" on \
MYEMBOSS "Examples for developers of EMBOSS apps" on \
PHYLIP "Phylogeny inference" on \
TOPO "Transmembrane display" on
CONFIGURE_ENV+= CPPFLAGS="-I${PREFIX}/include -I${LOCALBASE}/include" \
LDFLAGS="-L${PREFIX}/lib -L${LOCALBASE}/lib"
EMBASSY_WRKDIR= ${WRKSRC}/EMBASSY
DOMAINATRIX_VERSION= 0.1.0
EMNU_VERSION= 1.05
ESIM4_VERSION= 1.0.0
HMMER_VERSION= 2.1.1
MEME_VERSION= 2.3.1
MSE_VERSION= 1.0.0
TOPO_VERSION= 1.0.0
PHYLIP_VERSION= 3.6b
DOMALIGN_VERSION= 0.1.0
DOMSEARCH_VERSION= 0.1.0
SIGNATURE_VERSION= 0.1.0
STRUCTURE_VERSION= 0.1.0
MYEMBOSS_VERSION= 3.0.0
EMBASSY_APPS= DOMAINATRIX EMNU ESIM4 HMMER MEME MSE PHYLIP TOPO \
DOMALIGN DOMSEARCH SIGNATURE STRUCTURE MYEMBOSS
.include <bsd.port.pre.mk>
.for app in ${EMBASSY_APPS}
.if !defined(WITHOUT_${app})
APPLIST+= ${app}
${app}_WRKSRC= ${EMBASSY_WRKDIR}/${app}-${${app}_VERSION}
${app}_DISTFILE=${app}-${${app}_VERSION}${EXTRACT_SUFX}
DISTFILES+= ${${app}_DISTFILE}
PLIST_${app}= ""
.else
PLIST_${app}= "@comment "
.endif
PLIST_SUB+= PLIST_${app}=${PLIST_${app}}
.endfor
do-extract:
.for app in ${APPLIST}
@ ${MKDIR} ${EMBASSY_WRKDIR}
@ cd ${EMBASSY_WRKDIR} && ${EXTRACT_CMD} ${EXTRACT_BEFORE_ARGS} \
${_DISTDIR}/${${app}_DISTFILE} ${EXTRACT_AFTER_ARGS}
@ if [ `id -u` = 0 ]; then \
${CHMOD} -R ug-s ${${app}_WRKSRC}; \
${CHOWN} -R 0:0 ${${app}_WRKSRC}; \
fi
.endfor
post-patch:
@${FIND} ${WRKSRC} -name configure | ${XARGS} ${REINPLACE_CMD} -e 's|echo aout|echo elf|'
do-configure:
.for app in ${APPLIST}
@ cd ${${app}_WRKSRC} && \
${SETENV} ${CONFIGURE_ENV} ./${CONFIGURE_SCRIPT} ${CONFIGURE_ARGS}
.endfor
do-build:
.for app in ${APPLIST}
@ cd ${${app}_WRKSRC} && \
${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} ${MAKE_ARGS}
.endfor
do-install:
.for app in ${APPLIST}
@ cd ${${app}_WRKSRC} && \
${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
${MAKE_ARGS} ${INSTALL_TARGET}
.endfor
.include <bsd.port.post.mk>
|
