ports/87423: New port: biology/p5-Bio-ASN1-EntrezGene Regular expression-based Perl Parser for NCBI Entrez Gene

Mauricio Herrera Cuadra mauricio at arareko.net
Fri Oct 14 07:10:16 UTC 2005


>Number:         87423
>Category:       ports
>Synopsis:       New port: biology/p5-Bio-ASN1-EntrezGene Regular expression-based Perl Parser for NCBI Entrez Gene
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    freebsd-ports-bugs
>State:          open
>Quarter:        
>Keywords:       
>Date-Required:
>Class:          change-request
>Submitter-Id:   current-users
>Arrival-Date:   Fri Oct 14 07:10:15 GMT 2005
>Closed-Date:
>Last-Modified:
>Originator:     Mauricio Herrera Cuadra
>Release:        FreeBSD 5.4-STABLE i386
>Organization:
>Environment:
FreeBSD nordwand.arareko.net 5.4-STABLE FreeBSD 5.4-STABLE #0: Wed Oct 12 03:34:59 CDT 2005     root at nordwand.arareko.net:/usr/obj/usr/src/sys/nordwand  i386
>Description:
              Bio::ASN1::EntrezGene is a regular expression-based Perl Parser for NCBI Entrez
Gene genome databases (http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene). It
parses an ASN.1-formatted Entrez Gene record and returns a data structure that
contains all data items from the gene record.

The parser will report error & line number if input data does not conform to the
NCBI Entrez Gene genome annotation file format.
>How-To-Repeat:
              
>Fix:
              # This is a shell archive.  Save it in a file, remove anything before
# this line, and then unpack it by entering "sh file".  Note, it may
# create directories; files and directories will be owned by you and
# have default permissions.
#
# This archive contains:
#
#       biology/p5-Bio-ASN1-EntrezGene
#       biology/p5-Bio-ASN1-EntrezGene/pkg-plist
#       biology/p5-Bio-ASN1-EntrezGene/pkg-descr
#       biology/p5-Bio-ASN1-EntrezGene/Makefile
#       biology/p5-Bio-ASN1-EntrezGene/distinfo
#
echo c - biology/p5-Bio-ASN1-EntrezGene
mkdir -p biology/p5-Bio-ASN1-EntrezGene > /dev/null 2>&1
echo x - biology/p5-Bio-ASN1-EntrezGene/pkg-plist
sed 's/^X//' >biology/p5-Bio-ASN1-EntrezGene/pkg-plist << 'END-of-biology/p5-Bio-ASN1-EntrezGene/pkg-plist'
X%%SITE_PERL%%/Bio/ASN1/EntrezGene.pm
X%%SITE_PERL%%/Bio/ASN1/EntrezGene/Indexer.pm
X%%SITE_PERL%%/Bio/ASN1/Sequence.pm
X%%SITE_PERL%%/Bio/ASN1/Sequence/Indexer.pm
X%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1/EntrezGene/.packlist
X at dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1/EntrezGene
X at unexec rmdir %D/%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1 2>/dev/null || true
X at unexec rmdir %D/%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio 2>/dev/null || true
X at unexec rmdir %D/%%SITE_PERL%%/Bio/ASN1/EntrezGene 2>/dev/null || true
X at unexec rmdir %D/%%SITE_PERL%%/Bio/ASN1/Sequence 2>/dev/null || true
X at unexec rmdir %D/%%SITE_PERL%%/Bio/ASN1 2>/dev/null || true
X at unexec rmdir %D/%%SITE_PERL%%/Bio 2>/dev/null || true
END-of-biology/p5-Bio-ASN1-EntrezGene/pkg-plist
echo x - biology/p5-Bio-ASN1-EntrezGene/pkg-descr
sed 's/^X//' >biology/p5-Bio-ASN1-EntrezGene/pkg-descr << 'END-of-biology/p5-Bio-ASN1-EntrezGene/pkg-descr'
XBio::ASN1::EntrezGene is a regular expression-based Perl Parser for NCBI Entrez
XGene genome databases (http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene). It
Xparses an ASN.1-formatted Entrez Gene record and returns a data structure that
Xcontains all data items from the gene record.
X
XThe parser will report error & line number if input data does not conform to the
XNCBI Entrez Gene genome annotation file format.
X
XWWW: http://search.cpan.org/dist/Bio-ASN1-EntrezGene
X
X- Mauricio
Xmauricio at arareko.net
END-of-biology/p5-Bio-ASN1-EntrezGene/pkg-descr
echo x - biology/p5-Bio-ASN1-EntrezGene/Makefile
sed 's/^X//' >biology/p5-Bio-ASN1-EntrezGene/Makefile << 'END-of-biology/p5-Bio-ASN1-EntrezGene/Makefile'
X# New ports collection makefile for:   biology/p5-Bio-ASN1-EntrezGene
X# Date created:                                12 October 2005
X# Whom:                                        Mauricio Herrera Cuadra <mauricio at arareko.net>
X#
X# $FreeBSD$
X#
X
XPORTNAME=      Bio-ASN1-EntrezGene
XPORTVERSION=   1.091
XCATEGORIES=    biology perl5
XMASTER_SITES=  ${MASTER_SITE_PERL_CPAN}
XMASTER_SITE_SUBDIR=    Bio
XPKGNAMEPREFIX= p5-
XEXTRACT_SUFX=  .tgz
X
XMAINTAINER=    mauricio at arareko.net
XCOMMENT=       Regular expression-based Perl Parser for NCBI Entrez Gene
X
XWRKSRC=                ${WRKDIR}/Bio-ASN1-EntrezGene-1.09
X
XPERL_CONFIGURE=        yes
X
XMAN3=  Bio::ASN1::EntrezGene.3 \
X       Bio::ASN1::EntrezGene::Indexer.3 \
X       Bio::ASN1::Sequence.3 \
X       Bio::ASN1::Sequence::Indexer.3
X
X.include <bsd.port.pre.mk>
X
X.if ${PERL_LEVEL} < 500600
XIGNORE= requires at least perl5.6 to build
X.endif
X
X.include <bsd.port.post.mk>
END-of-biology/p5-Bio-ASN1-EntrezGene/Makefile
echo x - biology/p5-Bio-ASN1-EntrezGene/distinfo
sed 's/^X//' >biology/p5-Bio-ASN1-EntrezGene/distinfo << 'END-of-biology/p5-Bio-ASN1-EntrezGene/distinfo'
XMD5 (Bio-ASN1-EntrezGene-1.091.tgz) = fabb888e03435007e08050def1aed0ac
XSIZE (Bio-ASN1-EntrezGene-1.091.tgz) = 36360
END-of-biology/p5-Bio-ASN1-EntrezGene/distinfo
exit


>Release-Note:
>Audit-Trail:
>Unformatted:



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