# Created by: Johann Visagie <johann@egenetics.com>
# $FreeBSD$

PORTNAME=	fasta3
PORTVERSION=	36.3.8
CATEGORIES=	biology
MASTER_SITES=	http://faculty.virginia.edu/wrpearson/fasta/fasta36/
DISTNAME=	fasta-${PORTVERSION}
DIST_SUBDIR=	fasta3/2014-01-29

MAINTAINER=	wendell@bsd.com.br
COMMENT=	Collection of programs for searching DNA and protein databases

LICENSE=	Fasta
LICENSE_NAME=	Fasta program copyright W. Pearson and U.Virginia
LICENSE_FILE=	${WRKSRC}/COPYRIGHT
LICENSE_PERMS=	dist-mirror dist-sell pkg-mirror pkg-sell auto-accept

OPTIONS_DEFINE=	DOCS EXAMPLES

NO_CDROM=	May not be sold or incorporated into a commercial product

WRKSRC=		${WRKDIR}/${DISTNAME}
BUILD_WRKSRC=	${WRKSRC}/src
INSTALL_WRKSRC=	${BUILD_WRKSRC}

MAKEFILE=	Makefile.freebsd
MAKE_ENV=	THR_LIBS="-pthread" XDIR="${STAGEDIR}${PREFIX}/bin" \
		FASTA_HOST="$$(${UNAME} -n)"

SUB_FILES=	pkg-message

PLIST_SUB=	VER="${PORTVERSION:R:R}"

MAN1_LINKS=	fastf35.1 fasts35.1 fastm35.1 fastx35.1 fasty35.1 \
		ggsearch35.1 lalign35.1 ssearch35.1 tfasta35.1 tfastf35.1 \
		tfasts35.1 tfastx35.1 tfasty35.1 prfx35.1 prss35.1
MAN1_FILES=	fasta36.1 fastf3.1 fasts3.1 prss3.1 map_db.1 ps_lav.1
DOC_FILES=	README.versions \
		fasta_func.doc readme.* fasta.defaults \
		fasta.options fasta_versions.html changes*.html
DATA=		data/*.mat
EXAMPLES=	seq/*.aa seq/*.lc seq/*.seq seq/*.lib

post-patch:
	@${CP} ${WRKSRC}/make/${MAKEFILE} ${BUILD_WRKSRC}
	@${RM} ${WRKSRC}/bin/README

post-install:
	(cd ${WRKSRC}/bin && ${INSTALL_PROGRAM} * ${STAGEDIR}${PREFIX}/bin)
	(cd ${WRKSRC}/conf && ${INSTALL_DATA} fastlibs \
		${STAGEDIR}${PREFIX}/etc/fastlibs.sample)
	@${MKDIR} ${STAGEDIR}${DATADIR}
.for data in ${DATA}
	(cd ${WRKSRC} && ${INSTALL_DATA} ${data} ${STAGEDIR}${DATADIR})
.endfor
.for manpage in ${MAN1_FILES}
	(cd ${WRKSRC}/doc && ${INSTALL_MAN} ${manpage} \
		${STAGEDIR}${MAN1PREFIX}/man/man1)
.endfor
.for links in ${MAN1_LINKS}
	(${LN} -sf fasta36.1 ${STAGEDIR}${MAN1PREFIX}/man/man1/${links})
.endfor
	@${MKDIR} ${STAGEDIR}${DOCSDIR}
.for i in COPYRIGHT FASTA_LIST README
	(cd ${WRKSRC} && ${INSTALL_DATA} ${i} ${STAGEDIR}${DOCSDIR})
.endfor
.for docfile in ${DOC_FILES}
	(cd ${WRKSRC}/doc && ${INSTALL_DATA} ${docfile} ${STAGEDIR}${DOCSDIR})
.endfor
	@${MKDIR} ${STAGEDIR}${EXAMPLESDIR}
.for ex in ${EXAMPLES}
	(cd ${WRKSRC} && ${INSTALL_DATA} ${ex} ${STAGEDIR}${EXAMPLESDIR})
.endfor

.include <bsd.port.mk>
_yarn/devel/electron4/files/minimist-1.2.2'>dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.2</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.3'>dependabot/npm_and_yarn/devel/electron4/files/minimist-1.2.3</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/node-fetch-2.6.1'>dependabot/npm_and_yarn/devel/electron4/files/node-fetch-2.6.1</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/serve-10.1.2'>dependabot/npm_and_yarn/devel/electron4/files/serve-10.1.2</option>
<option value='dependabot/npm_and_yarn/devel/electron4/files/y18n-3.2.2'>dependabot/npm_and_yarn/devel/electron4/files/y18n-3.2.2</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.3'>dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.3</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.4'>dependabot/npm_and_yarn/devel/electron6/files/elliptic-6.5.4</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/ini-1.3.8'>dependabot/npm_and_yarn/devel/electron6/files/ini-1.3.8</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/lodash-4.17.19'>dependabot/npm_and_yarn/devel/electron6/files/lodash-4.17.19</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/lodash.merge-4.6.2'>dependabot/npm_and_yarn/devel/electron6/files/lodash.merge-4.6.2</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/node-fetch-2.6.1'>dependabot/npm_and_yarn/devel/electron6/files/node-fetch-2.6.1</option>
<option value='dependabot/npm_and_yarn/devel/electron6/files/serve-10.1.2'>dependabot/npm_and_yarn/devel/electron6/files/serve-10.1.2</option>
<option value='gnome-3.22'>gnome-3.22</option>
<option value='gnome-3.24'>gnome-3.24</option>
<option value='gnome-3.26'>gnome-3.26</option>
<option value='gnome-3.28'>gnome-3.28</option>
<option value='gnome-3.32'>gnome-3.32</option>
<option value='gnome-3.36' selected='selected'>gnome-3.36</option>
<option value='gstreamer'>gstreamer</option>
<option value='gstreamer-1.16'>gstreamer-1.16</option>
<option value='gstreamer0.10-removal'>gstreamer0.10-removal</option>
<option value='main'>main</option>
<option value='master'>master</option>
<option value='mate-1.16'>mate-1.16</option>
<option value='mate-1.18'>mate-1.18</option>
<option value='mate-1.20'>mate-1.20</option>
<option value='mate-1.22'>mate-1.22</option>
</select> <input type='submit' value='switch'/></form></td></tr>
<tr><td class='sub'>FreeBSD GNOME current development ports (https://github.com/freebsd/freebsd-ports-gnome)</td><td class='sub right'></td></tr></table>
<table class='tabs'><tr><td>
<a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/about/'>about</a><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/'>summary</a><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/refs/?id=a927f22723ca095d591742be74c44e433bb771a6'>refs</a><a class='active' href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/log/textproc/wv'>log</a><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/tree/textproc/wv?id=a927f22723ca095d591742be74c44e433bb771a6'>tree</a><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=a927f22723ca095d591742be74c44e433bb771a6'>commit</a><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/diff/textproc/wv?id=a927f22723ca095d591742be74c44e433bb771a6'>diff</a><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/stats/textproc/wv'>stats</a></td><td class='form'><form class='right' method='get' action='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/log/textproc/wv'>
<input type='hidden' name='id' value='a927f22723ca095d591742be74c44e433bb771a6'/><select name='qt'>
<option value='grep'>log msg</option>
<option value='author'>author</option>
<option value='committer'>committer</option>
<option value='range'>range</option>
</select>
<input class='txt' type='search' size='10' name='q' value=''/>
<input type='submit' value='search'/>
</form>
</td></tr></table>
<div class='path'>path: <a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/log/?id=a927f22723ca095d591742be74c44e433bb771a6'>root</a>/<a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/log/textproc?id=a927f22723ca095d591742be74c44e433bb771a6'>textproc</a>/<a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/log/textproc/wv?id=a927f22723ca095d591742be74c44e433bb771a6'>wv</a></div><div class='content'><table class='list nowrap'><tr class='nohover'><th></th><th class='left'>Commit message (<a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/log/textproc/wv?id=a927f22723ca095d591742be74c44e433bb771a6&amp;showmsg=1'>Expand</a>)</th><th class='left'>Author</th><th class='left'>Age</th><th class='left'>Files</th><th class='left'>Lines</th></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=03ee734d484b25a9b93a55b05618a238d83ef3a8'>Fix bento breakage &amp; update to 0.7.2.</a></td><td>sobomax</td><td><span title='2002-05-21 19:12:59 +0800'>2002-05-21</span></td><td>3</td><td><span class='deletions'>-35</span>/<span class='insertions'>+2</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=19bcbd5e8f11a494a26fe4ded236b3c8c01120dd'>Update to version 0.7.1</a></td><td>kevlo</td><td><span title='2002-03-23 18:23:06 +0800'>2002-03-23</span></td><td>4</td><td><span class='deletions'>-11</span>/<span class='insertions'>+8</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=905aa56821787eb98c150e2cd7e4222698cd34b5'>Iconv cleanup, stage 2b: remove regex hacks that change iconv.h to giconv.h and</a></td><td>sobomax</td><td><span title='2002-03-18 19:50:38 +0800'>2002-03-18</span></td><td>1</td><td><span class='deletions'>-6</span>/<span class='insertions'>+0</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=190b47ad20d301188e14cf2c756a8ddda2d9e705'>upgrade to 0.7.0</a></td><td>ijliao</td><td><span title='2001-12-09 04:16:35 +0800'>2001-12-09</span></td><td>5</td><td><span class='deletions'>-7</span>/<span class='insertions'>+50</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=79d3a52174d30f09183ccdd6dc1377fb4cffb0d3'>Update to 0.6.7 and unbreak.</a></td><td>knu</td><td><span title='2001-09-13 22:10:19 +0800'>2001-09-13</span></td><td>5</td><td><span class='deletions'>-482</span>/<span class='insertions'>+538</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=35a1a40a4d0c4ab18429e4ed80575c10c3fb75e1'>More style fixes for ports/textproc.</a></td><td>olgeni</td><td><span title='2001-02-06 00:35:26 +0800'>2001-02-06</span></td><td>1</td><td><span class='deletions'>-1</span>/<span class='insertions'>+1</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=532c21842b7be1955898e92b2c17ad024fa92e87'>Remove trailing period and package name from the pkg-comment.</a></td><td>demon</td><td><span title='2000-12-19 04:32:55 +0800'>2000-12-19</span></td><td>1</td><td><span class='deletions'>-1</span>/<span class='insertions'>+1</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=812735bbfb48f759e0158e7206bd2e14eb401fdd'>Wv is converter from MS Word to several data format such HTML, PDF, PS</a></td><td>sumikawa</td><td><span title='2000-11-07 01:18:02 +0800'>2000-11-07</span></td><td>6</td><td><span class='deletions'>-763</span>/<span class='insertions'>+501</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=4d5995a979b10e5784e5a39d6cc183b47e84d7aa'>The gd library now generates PNG files.  Also include a necessary header</a></td><td>steve</td><td><span title='2000-07-08 02:37:05 +0800'>2000-07-08</span></td><td>1</td><td><span class='deletions'>-0</span>/<span class='insertions'>+79</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=83513fef56c1c9996eb040a93488ed7837fac927'>Fix a typo that broke make index.</a></td><td>knu</td><td><span title='2000-07-05 19:13:25 +0800'>2000-07-05</span></td><td>1</td><td><span class='deletions'>-1</span>/<span class='insertions'>+1</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=f096be4b4de27712a10ce81827983090629138fe'>Now that libwmf builds shared libraries, update dependencies</a></td><td>ade</td><td><span title='2000-07-05 04:35:55 +0800'>2000-07-05</span></td><td>1</td><td><span class='deletions'>-1</span>/<span class='insertions'>+1</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=a8843baba6a200bd1438954f77dd13e4fda505d9'>Update with the new PORTNAME/PORTVERSION variables</a></td><td>cpiazza</td><td><span title='2000-04-10 05:54:47 +0800'>2000-04-10</span></td><td>1</td><td><span class='deletions'>-3</span>/<span class='insertions'>+3</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=21c6ec8411a7e8faaffba501e76f6c4568d1180c'>Update to 0.5.14-bw6</a></td><td>cpiazza</td><td><span title='1999-10-31 10:08:14 +0800'>1999-10-31</span></td><td>2</td><td><span class='deletions'>-3</span>/<span class='insertions'>+3</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=ff8c7fa0fd2aca7566ca5377570bd99865aeee2a'>$Id$ -&gt; $FreeBSD$</a></td><td>peter</td><td><span title='1999-08-31 10:11:56 +0800'>1999-08-31</span></td><td>1</td><td><span class='deletions'>-1</span>/<span class='insertions'>+1</span></td></tr>
<tr><td class='commitgraph'>* </td><td><a href='/~lantw44/cgit/cgit.cgi/freebsd-ports-gnome/commit/textproc/wv?id=afa0ca632899640fc0ce5d76973abca52e9c457a'>Update to version 0.5.14-bw2.</a></td><td>obrien</td><td><span title='1999-07-24 02:25:51 +0800'>1999-07-24</span></td><td>2</td><td><span class='deletions'>-3</span>/<span class='insertions'>+4</span></td></tr>