ports/106300: [PATCH] biology/p5-Bio-Das: update to 1.03
chinsan
chinsan at FreeBSD.org
Mon Dec 4 09:50:04 UTC 2006
>Number: 106300
>Category: ports
>Synopsis: [PATCH] biology/p5-Bio-Das: update to 1.03
>Confidential: no
>Severity: non-critical
>Priority: low
>Responsible: freebsd-ports-bugs
>State: open
>Quarter:
>Keywords:
>Date-Required:
>Class: update
>Submitter-Id: current-users
>Arrival-Date: Mon Dec 04 09:50:03 GMT 2006
>Closed-Date:
>Last-Modified:
>Originator: chinsan
>Release: FreeBSD 6.2-PRERELEASE i386
>Organization:
Taiwan
>Environment:
System: FreeBSD chinsan.twbbs.org 6.2-PRERELEASE FreeBSD 6.2-PRERELEASE #3: Mon Dec 4 02:04:40 CST
>Description:
- Update to 1.03
Port maintainer (razi at genet.sickkids.on.ca) is cc'd.
Generated with FreeBSD Port Tools 0.77
>How-To-Repeat:
>Fix:
--- p5-Bio-Das-1.03.patch begins here ---
diff -ruN --exclude=CVS /usr/ports/biology/p5-Bio-Das/Makefile /usr/home/chinsan/project/p5-Bio-Das/Makefile
--- /usr/ports/biology/p5-Bio-Das/Makefile Sun Dec 3 22:57:37 2006
+++ /usr/home/chinsan/project/p5-Bio-Das/Makefile Mon Dec 4 13:25:49 2006
@@ -6,7 +6,7 @@
#
PORTNAME= Bio-Das
-PORTVERSION= 1.02
+PORTVERSION= 1.03
CATEGORIES= biology
MASTER_SITES= http://www.biodas.org/download/Bio::Das/ \
${MASTER_SITE_PERL_CPAN}
@@ -25,57 +25,22 @@
PERL_CONFIGURE= YES
-MAN3= Bio::Das.3 \
- Bio::Das::AGPServer::Config.3 \
- Bio::Das::AGPServer::Daemon.3 \
- Bio::Das::AGPServer::Parser.3 \
- Bio::Das::AGPServer::SQLStorage.3 \
+MAN3= Bio::Das.3 Bio::Das::AGPServer::Config.3 Bio::Das::AGPServer::Daemon.3 \
+ Bio::Das::AGPServer::Parser.3 Bio::Das::AGPServer::SQLStorage.3 \
Bio::Das::AGPServer::SQLStorage::CSV::DB.3 \
Bio::Das::AGPServer::SQLStorage::MySQL::DB.3 \
- Bio::Das::DSN.3 \
- Bio::Das::Feature.3 \
- Bio::Das::FeatureIterator.3 \
- Bio::Das::HTTP::Fetch.3 \
- Bio::Das::Map.3 \
- Bio::Das::ProServer::Config.3 \
- Bio::Das::ProServer::Daemon.3 \
- Bio::Das::ProServer::Loader::agp.3 \
- Bio::Das::ProServer::SourceAdaptor.3 \
- Bio::Das::ProServer::SourceAdaptor::Transport::dbi.3 \
- Bio::Das::ProServer::SourceAdaptor::Transport::file.3 \
- Bio::Das::ProServer::SourceAdaptor::Transport::generic.3 \
- Bio::Das::ProServer::SourceAdaptor::Transport::getz.3 \
- Bio::Das::ProServer::SourceAdaptor::Transport::getzc.3 \
- Bio::Das::ProServer::SourceAdaptor::Transport::oracle.3 \
- Bio::Das::ProServer::SourceAdaptor::agp.3 \
- Bio::Das::ProServer::SourceAdaptor::cosmic.3 \
- Bio::Das::ProServer::SourceAdaptor::gensat.3 \
- Bio::Das::ProServer::SourceAdaptor::haplotype.3 \
- Bio::Das::ProServer::SourceAdaptor::image.3 \
- Bio::Das::ProServer::SourceAdaptor::interpro.3 \
- Bio::Das::ProServer::SourceAdaptor::simple.3 \
- Bio::Das::ProServer::SourceAdaptor::snp.3 \
- Bio::Das::ProServer::SourceAdaptor::sts.3 \
- Bio::Das::ProServer::SourceAdaptor::swissprot.3 \
- Bio::Das::ProServer::SourceAdaptor::trace.3 \
- Bio::Das::Request.3 \
- Bio::Das::Request::Dnas.3 \
- Bio::Das::Request::Dsn.3 \
- Bio::Das::Request::Entry_points.3 \
- Bio::Das::Request::Feature2Segments.3 \
- Bio::Das::Request::Sequences.3 \
- Bio::Das::Request::Stylesheet.3 \
- Bio::Das::Request::Types.3 \
- Bio::Das::Segment.3 \
- Bio::Das::Stylesheet.3 \
- Bio::Das::Type.3 \
- Bio::Das::TypeHandler.3 \
- Bio::Das::Util.3
+ Bio::Das::DSN.3 Bio::Das::Feature.3 Bio::Das::FeatureIterator.3 \
+ Bio::Das::HTTP::Fetch.3 Bio::Das::Map.3 Bio::Das::Request.3 \
+ Bio::Das::Request::Dnas.3 Bio::Das::Request::Dsn.3 \
+ Bio::Das::Request::Entry_points.3 Bio::Das::Request::Feature2Segments.3 \
+ Bio::Das::Request::Sequences.3 Bio::Das::Request::Stylesheet.3 \
+ Bio::Das::Request::Types.3 Bio::Das::Segment.3 Bio::Das::Stylesheet.3 \
+ Bio::Das::Type.3 Bio::Das::TypeHandler.3 Bio::Das::Util.3
.include <bsd.port.pre.mk>
.if (${PERL_LEVEL} < 500601)
-BROKEN= "Some dependencies doesn't work with Perl < 5.6.1"
+BROKEN= Some dependencies requires at least 5.6.1 Please install lang/perl5.8 and try again
.endif
.include <bsd.port.post.mk>
diff -ruN --exclude=CVS /usr/ports/biology/p5-Bio-Das/distinfo /usr/home/chinsan/project/p5-Bio-Das/distinfo
--- /usr/ports/biology/p5-Bio-Das/distinfo Sun Jan 22 16:20:32 2006
+++ /usr/home/chinsan/project/p5-Bio-Das/distinfo Mon Dec 4 13:09:04 2006
@@ -1,3 +1,3 @@
-MD5 (Bio-Das-1.02.tar.gz) = 6b3706f1ca52da18bd7c6376cf89b244
-SHA256 (Bio-Das-1.02.tar.gz) = 3aad2bbd746d1ce3468f26521793c7a9bad417b9670e061a9ef355f10a506705
-SIZE (Bio-Das-1.02.tar.gz) = 127150
+MD5 (Bio-Das-1.03.tar.gz) = 9971a1ab003d66c8e055ee00b31fede8
+SHA256 (Bio-Das-1.03.tar.gz) = af77f83d294ab6c720af49dbac58655325e2a9be79149d5437d67c888d1042a9
+SIZE (Bio-Das-1.03.tar.gz) = 101698
diff -ruN --exclude=CVS /usr/ports/biology/p5-Bio-Das/pkg-plist /usr/home/chinsan/project/p5-Bio-Das/pkg-plist
--- /usr/ports/biology/p5-Bio-Das/pkg-plist Fri Jan 6 06:31:12 2006
+++ /usr/home/chinsan/project/p5-Bio-Das/pkg-plist Mon Dec 4 16:24:00 2006
@@ -1,63 +1,35 @@
+%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Das/.packlist
%%SITE_PERL%%/Bio/Das.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/Config.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/Daemon.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/Parser.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/Proxy.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/CSV/DB.pm
-%%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/MySQL/DB.pm
%%SITE_PERL%%/Bio/Das/DSN.pm
-%%SITE_PERL%%/Bio/Das/Feature.pm
-%%SITE_PERL%%/Bio/Das/FeatureIterator.pm
-%%SITE_PERL%%/Bio/Das/HTTP/Fetch.pm
-%%SITE_PERL%%/Bio/Das/Map.pm
-%%SITE_PERL%%/Bio/Das/ProServer/Config.pm
-%%SITE_PERL%%/Bio/Das/ProServer/Daemon.pm
-%%SITE_PERL%%/Bio/Das/ProServer/Loader/agp.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/bioseqio.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/dbi.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/file.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/generic.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/getz.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/getzc.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/oracle.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport/wgetz.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/agp.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/bioseq.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/cosmic.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/gensat.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/haplotype.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/image.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/interpro.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/simple.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/snp.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/sts.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/swissprot.pm
-%%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/trace.pm
%%SITE_PERL%%/Bio/Das/Request.pm
-%%SITE_PERL%%/Bio/Das/Request/Dnas.pm
-%%SITE_PERL%%/Bio/Das/Request/Dsn.pm
-%%SITE_PERL%%/Bio/Das/Request/Entry_points.pm
-%%SITE_PERL%%/Bio/Das/Request/Feature2Segments.pm
-%%SITE_PERL%%/Bio/Das/Request/Features.pm
-%%SITE_PERL%%/Bio/Das/Request/Sequences.pm
-%%SITE_PERL%%/Bio/Das/Request/Stylesheet.pm
-%%SITE_PERL%%/Bio/Das/Request/Types.pm
-%%SITE_PERL%%/Bio/Das/Segment.pm
%%SITE_PERL%%/Bio/Das/Stylesheet.pm
+%%SITE_PERL%%/Bio/Das/Map.pm
+%%SITE_PERL%%/Bio/Das/FeatureIterator.pm
+%%SITE_PERL%%/Bio/Das/Segment.pm
%%SITE_PERL%%/Bio/Das/Type.pm
+%%SITE_PERL%%/Bio/Das/Feature.pm
%%SITE_PERL%%/Bio/Das/TypeHandler.pm
%%SITE_PERL%%/Bio/Das/Util.pm
-%%SITE_PERL%%/mach/auto/Bio/Das/.packlist
- at dirrm %%SITE_PERL%%/mach/auto/Bio/Das
- at dirrm %%SITE_PERL%%/Bio/Das/Request
- at dirrm %%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor/Transport
- at dirrm %%SITE_PERL%%/Bio/Das/ProServer/SourceAdaptor
- at dirrm %%SITE_PERL%%/Bio/Das/ProServer/Loader
- at dirrm %%SITE_PERL%%/Bio/Das/ProServer
- at dirrm %%SITE_PERL%%/Bio/Das/HTTP
- at dirrm %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/MySQL
- at dirrm %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/CSV
- at dirrm %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage
- at dirrm %%SITE_PERL%%/Bio/Das/AGPServer
+%%SITE_PERL%%/Bio/Das/Request/Sequences.pm
+%%SITE_PERL%%/Bio/Das/Request/Dnas.pm
+%%SITE_PERL%%/Bio/Das/Request/Types.pm
+%%SITE_PERL%%/Bio/Das/Request/Feature2Segments.pm
+%%SITE_PERL%%/Bio/Das/Request/Features.pm
+%%SITE_PERL%%/Bio/Das/Request/Dsn.pm
+%%SITE_PERL%%/Bio/Das/Request/Entry_points.pm
+%%SITE_PERL%%/Bio/Das/Request/Stylesheet.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/Proxy.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/Parser.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/Daemon.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/Config.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/CSV/DB.pm
+%%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/MySQL/DB.pm
+%%SITE_PERL%%/Bio/Das/HTTP/Fetch.pm
+ at dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Das
+ at dirrmtry %%SITE_PERL%%/Bio/Das/Request
+ at dirrmtry %%SITE_PERL%%/Bio/Das/HTTP
+ at dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/MySQL
+ at dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/CSV
+ at dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage
+ at dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer
--- p5-Bio-Das-1.03.patch ends here ---
>Release-Note:
>Audit-Trail:
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