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- Update to 35.4.4

Browse Source 
PR:		132007
Submitted by:	Fernan Aguero <fernan at iib dot unsam dot edu dot ar> (maintainer)
This commit is contained in:
Dmitry Marakasov 2009-02-23 16:12:23 +00:00
parent a4e7052fca
commit bb0af38121
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=228918
3 changed files with 47 additions and 25 deletions
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36
biology/fasta3/Makefile
View File

@ -7,7 +7,7 @@
#
PORTNAME= fasta3
PORTVERSION= 35.3.6
PORTVERSION= 35.4.4
CATEGORIES= biology
MASTER_SITES= http://faculty.virginia.edu/wrpearson/fasta/fasta3/
DISTNAME= fasta-${PORTVERSION}
@ -17,6 +17,8 @@ COMMENT= A collection of programs for searching DNA and protein databases
NO_CDROM= May not be sold or incorporated into a commercial product
WRKSRC= ${WRKDIR}/${DISTNAME}
BUILD_WRKSRC= ${WRKSRC}/src
INSTALL_WRKSRC= ${BUILD_WRKSRC}
SUB_FILES= pkg-message
MAKEFILE= Makefile.freebsd
@ -26,19 +28,26 @@ FASTA_HOST!= /usr/bin/uname -n
MAKE_ENV+= THR_LIBS=${PTHREAD_LIBS} XDIR=${XDIR} \
FASTA_HOST='"${FASTA_HOST}"'
FASTA3_DOCS= README COPYRIGHT FASTA_LIST fasta3x.me fasta3x.doc \
fasta20.doc fasta_func.doc readme.* fasta.defaults
DATA= *.mat
EXAMPLES= *.aa *.lc *.seq
FASTA3_DOCS= README.versions fasta3x.me fasta3x.doc \
fasta20.doc 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
MAN1= fasta3.1 fastf3.1 fasts3.1 map_db.1 prss3.1
MLINKS= fasta3.1 tfasta3.1 fasta3.1 fastx3.1 fasta3.1 tfastx3.1 \
fasta3.1 fasty3.1 fasta3.1 tfasty3.1 fasta3.1 ssearch3.1 \
fastf3.1 tfastf3.1 fasts3.1 tfasts3.1
MAN1= fasta35.1 fastf3.1 fasts3.1 map_db.1 prss3.1 ps_lav.1 \
pvcomp.1
MLINKS= fasta35.1 tfasta35.1 fasta35.1 fastx35.1 fasta35.1 tfastx35.1 \
fasta35.1 fasty35.1 fasta35.1 tfasty35.1 fasta35.1 ssearch35.1 \
fasta35.1 fastf35.1 fasta35.1 fasts35.1 fasta35.1 tfasts35.1 \
fasta35.1 fastm35.1 fasta35.1 fastf35.1 fasta35.1 ggsearch35.1 \
fasta35.1 lalign35.1 fasta35.1 prss35.1 fasta35.1 prfx35.1
PLIST_SUB= VER=${PORTVERSION:R:R}
post-patch:
@ ${CP} ${WRKSRC}/make/${MAKEFILE} ${BUILD_WRKSRC}/
post-install:
${INSTALL_DATA} ${WRKSRC}/fastlibs ${PREFIX}/etc/fastlibs.sample
${INSTALL_PROGRAM} ${WRKSRC}/bin/* ${PREFIX}/bin/
${INSTALL_DATA} ${WRKSRC}/conf/fastlibs ${PREFIX}/etc/fastlibs.sample
@ ${MKDIR} ${DATADIR}
.for data in ${DATA}
${INSTALL_DATA} ${WRKSRC}/${data} ${DATADIR}
@ -48,12 +57,15 @@ post-install:
${INSTALL_DATA} ${WRKSRC}/${ex} ${EXAMPLESDIR}
.endfor
.for manpage in ${MAN1}
@ ${INSTALL_MAN} ${WRKSRC}/${manpage} ${MAN1PREFIX}/man/man1/
@ ${INSTALL_MAN} ${WRKSRC}/doc/${manpage} ${MAN1PREFIX}/man/man1/
.endfor
.if !defined(NOPORTDOCS)
@ ${MKDIR} ${DOCSDIR}
${INSTALL_DATA} ${WRKSRC}/README ${DOCSDIR}
${INSTALL_DATA} ${WRKSRC}/COPYRIGHT ${DOCSDIR}
${INSTALL_DATA} ${WRKSRC}/FASTA_LIST ${DOCSDIR}
.for docfile in ${FASTA3_DOCS}
@ ${INSTALL_DATA} ${WRKSRC}/${docfile} ${DOCSDIR}
@ ${INSTALL_DATA} ${WRKSRC}/doc/${docfile} ${DOCSDIR}
.endfor
.endif
@ ${CAT} ${PKGMESSAGE}

6
biology/fasta3/distinfo
View File

@ -1,3 +1,3 @@
MD5 (fasta-35.3.6.tar.gz) = d324f94fc90a78e7d0c8d97bacdd448a
SHA256 (fasta-35.3.6.tar.gz) = 4525232e2a1a42388921760d75c5ece6e058d9ce2c35cba074ce544d6e56df15
SIZE (fasta-35.3.6.tar.gz) = 614606
MD5 (fasta-35.4.4.tar.gz) = a96d498fc548c8b65b07f13b9548a36d
SHA256 (fasta-35.4.4.tar.gz) = 744911dd6524e57f63c32d76016bd071e16b7c39c34277b2a4d79a601e74d258
SIZE (fasta-35.4.4.tar.gz) = 612851

30
biology/fasta3/pkg-plist
View File

@ -17,6 +17,7 @@ bin/glsearch%%VER%%_t
bin/lalign%%VER%%
bin/lav2ps
bin/lav2svg
bin/map_db
bin/ssearch%%VER%%
bin/ssearch%%VER%%_t
bin/tfastf%%VER%%
@ -32,6 +33,7 @@ etc/fastlibs.sample
%%PORTDOCS%%%%DOCSDIR%%/README
%%PORTDOCS%%%%DOCSDIR%%/COPYRIGHT
%%PORTDOCS%%%%DOCSDIR%%/FASTA_LIST
%%PORTDOCS%%%%DOCSDIR%%/README.versions
%%PORTDOCS%%%%DOCSDIR%%/fasta3x.me
%%PORTDOCS%%%%DOCSDIR%%/fasta3x.doc
%%PORTDOCS%%%%DOCSDIR%%/fasta20.doc
@ -51,25 +53,21 @@ etc/fastlibs.sample
%%PORTDOCS%%%%DOCSDIR%%/readme.v35
%%PORTDOCS%%%%DOCSDIR%%/readme.w32
%%PORTDOCS%%%%DOCSDIR%%/fasta.defaults
%%EXAMPLESDIR%%/bovgh.seq
%%EXAMPLESDIR%%/bovprl.seq
%%PORTDOCS%%%%DOCSDIR%%/fasta.options
%%PORTDOCS%%%%DOCSDIR%%/fasta_versions.html
%%PORTDOCS%%%%DOCSDIR%%/changes_v34.html
%%PORTDOCS%%%%DOCSDIR%%/changes_v35.html
%%EXAMPLESDIR%%/egmsmg.aa
%%EXAMPLESDIR%%/gst.seq
%%EXAMPLESDIR%%/gstt1_drome.aa
%%EXAMPLESDIR%%/gtm1_human.aa
%%EXAMPLESDIR%%/gtt1_drome.aa
%%EXAMPLESDIR%%/h10_human.aa
%%EXAMPLESDIR%%/hahu.aa
%%EXAMPLESDIR%%/hsgstm1b.seq
%%EXAMPLESDIR%%/humgstd.seq
%%EXAMPLESDIR%%/lcbo.aa
%%EXAMPLESDIR%%/m1r.aa
%%EXAMPLESDIR%%/m2.aa
%%EXAMPLESDIR%%/mchu.aa
%%EXAMPLESDIR%%/mgstm1.aa
%%EXAMPLESDIR%%/mgstm1.lc
%%EXAMPLESDIR%%/mgstm1.seq
%%EXAMPLESDIR%%/mgtt2_x.seq
%%EXAMPLESDIR%%/ms1.aa
%%EXAMPLESDIR%%/musplfm.aa
%%EXAMPLESDIR%%/mwkw.aa
@ -86,10 +84,22 @@ etc/fastlibs.sample
%%EXAMPLESDIR%%/prio_atepa.aa
%%EXAMPLESDIR%%/qrhuld.aa
%%EXAMPLESDIR%%/titin_hum.aa
%%EXAMPLESDIR%%/titin_hum.seq
%%EXAMPLESDIR%%/xurt8c.aa
%%EXAMPLESDIR%%/xurt8c.lc
%%EXAMPLESDIR%%/xurtg.aa
%%EXAMPLESDIR%%/mgstm1.lc
%%EXAMPLESDIR%%/xurt8c.lc
%%EXAMPLESDIR%%/bovgh.seq
%%EXAMPLESDIR%%/bovprl.seq
%%EXAMPLESDIR%%/gst.seq
%%EXAMPLESDIR%%/hsgstm1b.seq
%%EXAMPLESDIR%%/humgstd.seq
%%EXAMPLESDIR%%/mgstm1.seq
%%EXAMPLESDIR%%/mgtt2_x.seq
%%EXAMPLESDIR%%/titin_hum.seq
%%EXAMPLESDIR%%/mu.lib
%%EXAMPLESDIR%%/n2_fs.lib
%%EXAMPLESDIR%%/n_fs.lib
%%EXAMPLESDIR%%/prot_test.lib
%%DATADIR%%/blosum45.mat
%%DATADIR%%/blosum50.mat
%%DATADIR%%/blosum62.mat