From owner-freebsd-ports-bugs@FreeBSD.ORG Fri Oct 14 07:10:16 2005 Return-Path: X-Original-To: freebsd-ports-bugs@hub.freebsd.org Delivered-To: freebsd-ports-bugs@hub.freebsd.org Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125]) by hub.freebsd.org (Postfix) with ESMTP id 834DF16A41F for ; Fri, 14 Oct 2005 07:10:16 +0000 (GMT) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (freefall.freebsd.org [216.136.204.21]) by mx1.FreeBSD.org (Postfix) with ESMTP id C801F43D53 for ; Fri, 14 Oct 2005 07:10:15 +0000 (GMT) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (gnats@localhost [127.0.0.1]) by freefall.freebsd.org (8.13.3/8.13.3) with ESMTP id j9E7AFcB050003 for ; Fri, 14 Oct 2005 07:10:15 GMT (envelope-from gnats@freefall.freebsd.org) Received: (from gnats@localhost) by freefall.freebsd.org (8.13.3/8.13.1/Submit) id j9E7AF2c050002; Fri, 14 Oct 2005 07:10:15 GMT (envelope-from gnats) Resent-Date: Fri, 14 Oct 2005 07:10:15 GMT Resent-Message-Id: <200510140710.j9E7AF2c050002@freefall.freebsd.org> Resent-From: FreeBSD-gnats-submit@FreeBSD.org (GNATS Filer) Resent-To: freebsd-ports-bugs@FreeBSD.org Resent-Reply-To: FreeBSD-gnats-submit@FreeBSD.org, Mauricio Herrera Cuadra Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125]) by hub.freebsd.org (Postfix) with ESMTP id 59DAB16A41F for ; Fri, 14 Oct 2005 07:08:10 +0000 (GMT) (envelope-from nobody@FreeBSD.org) Received: from www.freebsd.org (www.freebsd.org [216.136.204.117]) by mx1.FreeBSD.org (Postfix) with ESMTP id DD8B343D45 for ; Fri, 14 Oct 2005 07:08:09 +0000 (GMT) (envelope-from nobody@FreeBSD.org) Received: from www.freebsd.org (localhost [127.0.0.1]) by www.freebsd.org (8.13.1/8.13.1) with ESMTP id j9E789RT089914 for ; Fri, 14 Oct 2005 07:08:09 GMT (envelope-from nobody@www.freebsd.org) Received: (from nobody@localhost) by www.freebsd.org (8.13.1/8.13.1/Submit) id j9E789Bo089913; Fri, 14 Oct 2005 07:08:09 GMT (envelope-from nobody) Message-Id: <200510140708.j9E789Bo089913@www.freebsd.org> Date: Fri, 14 Oct 2005 07:08:09 GMT From: Mauricio Herrera Cuadra To: freebsd-gnats-submit@FreeBSD.org X-Send-Pr-Version: www-2.3 Cc: Subject: ports/87423: New port: biology/p5-Bio-ASN1-EntrezGene Regular expression-based Perl Parser for NCBI Entrez Gene X-BeenThere: freebsd-ports-bugs@freebsd.org X-Mailman-Version: 2.1.5 Precedence: list List-Id: Ports bug reports List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Fri, 14 Oct 2005 07:10:16 -0000 >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@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@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1/EntrezGene X@unexec rmdir %D/%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1 2>/dev/null || true X@unexec rmdir %D/%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio 2>/dev/null || true X@unexec rmdir %D/%%SITE_PERL%%/Bio/ASN1/EntrezGene 2>/dev/null || true X@unexec rmdir %D/%%SITE_PERL%%/Bio/ASN1/Sequence 2>/dev/null || true X@unexec rmdir %D/%%SITE_PERL%%/Bio/ASN1 2>/dev/null || true X@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@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 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@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 X X.if ${PERL_LEVEL} < 500600 XIGNORE= requires at least perl5.6 to build X.endif X X.include 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: