diff options
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/ariadne/Makefile | 3 | ||||
| -rw-r--r-- | biology/consed/Makefile | 3 | ||||
| -rw-r--r-- | biology/mafft/Makefile | 3 | ||||
| -rw-r--r-- | biology/p5-Bio-ASN1-EntrezGene/Makefile | 3 | ||||
| -rw-r--r-- | biology/paml/Makefile | 3 | ||||
| -rw-r--r-- | biology/psi88/Makefile | 3 | ||||
| -rw-r--r-- | biology/tRNAscan-SE/Makefile | 3 | ||||
| -rw-r--r-- | biology/velvet/Makefile | 3 |
8 files changed, 8 insertions, 16 deletions
diff --git a/biology/ariadne/Makefile b/biology/ariadne/Makefile index 9c7c1938d81a..87a5271a1c87 100644 --- a/biology/ariadne/Makefile +++ b/biology/ariadne/Makefile @@ -5,7 +5,6 @@ PORTNAME= ariadne PORTVERSION= 1.3 CATEGORIES= biology MASTER_SITES= http://www.well.ox.ac.uk/ariadne/ -EXTRACT_SUFX= .tar.Z MAINTAINER= ports@FreeBSD.org COMMENT= Programs to compare protein sequences and profiles @@ -13,7 +12,7 @@ COMMENT= Programs to compare protein sequences and profiles WRKSRC= ${WRKDIR}/SRC-${PORTVERSION} PLIST_FILES+= bin/ariadne bin/prospero -USES= gmake +USES= gmake tar:Z PORTDOCS= README MAKE_ARGS+= CC="${CC}" diff --git a/biology/consed/Makefile b/biology/consed/Makefile index 13c88e9c85cf..4debb50ee96d 100644 --- a/biology/consed/Makefile +++ b/biology/consed/Makefile @@ -6,7 +6,6 @@ PORTVERSION= 16.0 CATEGORIES= biology MASTER_SITES= http://www.phrap.org/consed/distributions/${PORTVERSION}/ DISTNAME= ${PORTNAME}_linux -EXTRACT_SUFX= .tar.Z MAINTAINER= mzaki@m.u-tokyo.ac.jp COMMENT= Graphical tool for editing Phrap assemblies @@ -15,7 +14,7 @@ RUN_DEPENDS= phred:${PORTSDIR}/biology/phred \ phrap:${PORTSDIR}/biology/phrap \ phd2fasta:${PORTSDIR}/biology/phd2fasta -USES= perl5 +USES= perl5 tar:Z USE_LINUX= yes USE_LINUX_APPS= xorglibs ONLY_FOR_ARCHS= i386 amd64 diff --git a/biology/mafft/Makefile b/biology/mafft/Makefile index 70a3062758de..4800e6a5c667 100644 --- a/biology/mafft/Makefile +++ b/biology/mafft/Makefile @@ -6,7 +6,6 @@ PORTVERSION= 7.149 CATEGORIES= biology MASTER_SITES= http://mafft.cbrc.jp/alignment/software/ DISTNAME= ${PORTNAME}-${PORTVERSION}-without-extensions-src -EXTRACT_SUFX= .tgz MAINTAINER= cartwright@asu.edu COMMENT= Multiple alignment program for amino acid or nucleotide sequences @@ -18,7 +17,7 @@ OPTIONS_DEFINE= DOCS EXAMPLES WRKSRC= ${WRKDIR}/${PORTNAME}-${PORTVERSION}-without-extensions BUILD_WRKSRC= ${WRKSRC}/core -USES= gmake shebangfix +USES= gmake shebangfix tar:tgz SHEBANG_FILES= core/mafftash_premafft.tmpl diff --git a/biology/p5-Bio-ASN1-EntrezGene/Makefile b/biology/p5-Bio-ASN1-EntrezGene/Makefile index 802b665f2016..e9a3ff4706b9 100644 --- a/biology/p5-Bio-ASN1-EntrezGene/Makefile +++ b/biology/p5-Bio-ASN1-EntrezGene/Makefile @@ -6,14 +6,13 @@ PORTVERSION= 1.091 CATEGORIES= biology perl5 MASTER_SITES= CPAN PKGNAMEPREFIX= p5- -EXTRACT_SUFX= .tgz MAINTAINER= mauricio@arareko.net COMMENT= Regular expression-based Perl Parser for NCBI Entrez Gene WRKSRC= ${WRKDIR}/Bio-ASN1-EntrezGene-1.09 -USES= perl5 +USES= perl5 tar:tgz USE_PERL5= configure .include <bsd.port.mk> diff --git a/biology/paml/Makefile b/biology/paml/Makefile index 906e11b4e5a0..65f0a6cf2190 100644 --- a/biology/paml/Makefile +++ b/biology/paml/Makefile @@ -6,12 +6,11 @@ PORTVERSION= 4.8 CATEGORIES= biology MASTER_SITES= http://abacus.gene.ucl.ac.uk/software/ DISTNAME= ${PORTNAME}${PORTVERSION} -EXTRACT_SUFX= .tgz MAINTAINER= ports@FreeBSD.org COMMENT= Phylogenetic Analysis by Maximum Likelihood (PAML) -USES= gmake +USES= gmake tar:tgz WRKSRC= ${WRKDIR}/${PORTNAME}${PORTVERSION}/src MAKE_ARGS= CC="${CC}" CFLAGS="${CFLAGS}" diff --git a/biology/psi88/Makefile b/biology/psi88/Makefile index 3a4c7387fa9c..231900cd2d4d 100644 --- a/biology/psi88/Makefile +++ b/biology/psi88/Makefile @@ -7,12 +7,11 @@ PORTREVISION= 6 CATEGORIES= biology MASTER_SITES= http://www.ccl.net/cca/software/SOURCES/FORTRAN/psi88/ DISTNAME= ${PORTNAME} -EXTRACT_SUFX= .tar.Z MAINTAINER= ports@FreeBSD.org COMMENT= Plotting wavefunctions (molecular orbitals) in 3D -USES= fortran +USES= fortran tar:Z MAKE_ARGS= BIN=${STAGEDIR}${PREFIX}/bin PLIST_FILES= bin/PSI1 bin/PSICON bin/PSI2CT bin/PSI2HP bin/PSI2PS bin/PSI2 \ bin/PREPLOT bin/preplot bin/rpsi1 bin/rpsi2 bin/rpsicon diff --git a/biology/tRNAscan-SE/Makefile b/biology/tRNAscan-SE/Makefile index 985cb016841f..2928e708156e 100644 --- a/biology/tRNAscan-SE/Makefile +++ b/biology/tRNAscan-SE/Makefile @@ -6,12 +6,11 @@ PORTVERSION= 1.23 PORTREVISION= 1 CATEGORIES= biology MASTER_SITES= ftp://selab.janelia.org/pub/software/tRNAscan-SE/ -EXTRACT_SUFX= .tar.Z MAINTAINER= ports@FreeBSD.org COMMENT= Improved tool for transfer RNA detection -USES= perl5 +USES= perl5 tar:Z MAKE_ARGS= BINDIR="${PREFIX}/bin" \ LIBDIR="${DATADIR}" \ CC="${CC}" \ diff --git a/biology/velvet/Makefile b/biology/velvet/Makefile index f598e3deb1db..1b25da738a44 100644 --- a/biology/velvet/Makefile +++ b/biology/velvet/Makefile @@ -7,7 +7,6 @@ PORTREVISION= 1 CATEGORIES= biology MASTER_SITES= http://www.ebi.ac.uk/~zerbino/velvet/ DISTNAME= ${PORTNAME}_${PORTVERSION} -EXTRACT_SUFX= .tgz MAINTAINER= mzaki@m.u-tokyo.ac.jp COMMENT= Sequence assembler for very short reads @@ -18,7 +17,7 @@ MAXKMERLENGTH?= 31 VELVET_CATEGORIES?= 2 MAKE_ENV+= MAXKMERLENGTH=${MAXKMERLENGTH} CATEGORIES=${VELVET_CATEGORIES} -USES= perl5 gmake shebangfix +USES= perl5 gmake shebangfix tar:tgz USE_PERL5= run BINARIES= velvetg velveth |