Date: Mon, 09 Oct 2000 17:49:14 +0200 From: johann@egenetics.com To: FreeBSD-gnats-submit@freebsd.org Subject: ports/21865: Update port: biology/p5-AcePerl (maintainer) Message-ID: <E13ifAw-0009D8-00@fling.sanbi.ac.za>
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>Number: 21865
>Category: ports
>Synopsis: Update port: biology/p5-AcePerl (maintainer)
>Confidential: no
>Severity: non-critical
>Priority: low
>Responsible: freebsd-ports
>State: open
>Quarter:
>Keywords:
>Date-Required:
>Class: change-request
>Submitter-Id: current-users
>Arrival-Date: Mon Oct 09 08:50:04 PDT 2000
>Closed-Date:
>Last-Modified:
>Originator: Johann Visagie
>Release: FreeBSD 3.5-STABLE i386
>Organization:
Electric Genetics
>Environment:
>Description:
- Update biology/p5-AcePerl from 1.62 to 1.67
- Alphabetise ${PLIST} to ease future maintenance
- Port now compiles in XS optimisations and RPC server interface
- Port now honours ${CC} properly, also for compiled extensions
- Port now uses PERL_CONFIGURE
- Hand over port MAINTAINERship to FreeBSD bio-porters mailing list
>How-To-Repeat:
>Fix:
diff -ruN p5-AcePerl.bak/Makefile p5-AcePerl/Makefile
--- p5-AcePerl.bak/Makefile Fri Jul 28 15:16:10 2000
+++ p5-AcePerl/Makefile Mon Oct 9 17:37:27 2000
@@ -6,16 +6,17 @@
#
PORTNAME= AcePerl
-PORTVERSION= 1.62
+PORTVERSION= 1.67
CATEGORIES= biology databases perl5
MASTER_SITES= http://stein.cshl.org/AcePerl/archive/ \
${MASTER_SITE_PERL_CPAN}
MASTER_SITE_SUBDIR=Ace
PKGNAMEPREFIX= p5-
-MAINTAINER= johann@egenetics.com
+MAINTAINER= bio@freebsd.net
USE_PERL5= YES
+PERL_CONFIGURE= YES
MAN3= Ace::Sequence::Feature.3 \
Ace::Sequence.3 \
@@ -30,8 +31,8 @@
MANPREFIX= ${PREFIX}/lib/perl5/${PERL_VERSION}
-do-configure:
- ${CP} ${FILESDIR}/FREEBSD_DEF ${WRKSRC}/ace/wmake/
- @ cd ${WRKSRC}; ${SETENV} ${MAKE_ENV} ${PERL5} Makefile.PL
+post-patch:
+ @ ${SED} -e 's/XX__CC__XX/${CC}/' < ${FILESDIR}/FREEBSD_DEF \
+ > ${WRKSRC}/ace/wmake/FREEBSD_DEF
.include <bsd.port.mk>
diff -ruN p5-AcePerl.bak/distinfo p5-AcePerl/distinfo
--- p5-AcePerl.bak/distinfo Fri Jul 28 15:16:10 2000
+++ p5-AcePerl/distinfo Mon Oct 9 16:09:24 2000
@@ -1 +1 @@
-MD5 (AcePerl-1.62.tar.gz) = d9978077a8e1857b94216d5a28bc38ef
+MD5 (AcePerl-1.67.tar.gz) = 46c9bc547f4c8e73480ddac7cbf79d95
diff -ruN p5-AcePerl.bak/files/FREEBSD_DEF p5-AcePerl/files/FREEBSD_DEF
--- p5-AcePerl.bak/files/FREEBSD_DEF Fri Jul 28 15:16:10 2000
+++ p5-AcePerl/files/FREEBSD_DEF Mon Oct 9 17:26:35 2000
@@ -8,10 +8,10 @@
##### following the explanations given in wmake/truemake #####
#################################################################
-CFLAGS+= -g -Wall -O2 -DACEDB4
NAME = FREEBSD
-COMPILER = gcc ${CFLAGS}
-LINKER = gcc -g
+CFLAGS+= -g -Wall -O2 -DACEDB4
+COMPILER = XX__CC__XX ${CFLAGS}
+LINKER = XX__CC__XX -g
LIBS = -lm
Xt_LIBS = -L/usr/X11R6/lib -lXaw -lXt -lXmu -lXext -lX11
diff -ruN p5-AcePerl.bak/files/patch-ac p5-AcePerl/files/patch-ac
--- p5-AcePerl.bak/files/patch-ac Thu Jan 1 02:00:00 1970
+++ p5-AcePerl/files/patch-ac Mon Oct 9 16:43:52 2000
@@ -0,0 +1,11 @@
+--- Makefile.PL.orig Thu Aug 31 19:02:21 2000
++++ Makefile.PL Mon Oct 9 16:43:32 2000
+@@ -1,7 +1,7 @@
+ use Config;
+ use ExtUtils::MakeMaker qw(prompt WriteMakefile);
+
+-my $choice;
++my $choice = 3;
+ while (!$choice) {
+ $reply = prompt(
+ "\nWhat do you want to build?\n\n" .
diff -ruN p5-AcePerl.bak/pkg-descr p5-AcePerl/pkg-descr
--- p5-AcePerl.bak/pkg-descr Fri Jul 28 15:16:10 2000
+++ p5-AcePerl/pkg-descr Mon Oct 9 17:40:01 2000
@@ -2,7 +2,9 @@
system. It provides functionality for connecting to remote ACEDB databases,
performing queries, fetching ACE objects, and updating databases.
+Author: Lincoln D. Stein <lstein@cshl.org>
WWW: http://stein.cshl.org/AcePerl/
-- Johann
-johann@egenetics.com
+Port maintained by the FreeBSD bio-porters mailing list.
+
+-- FreeBSD bio-porters <bio@freebsd.net>
diff -ruN p5-AcePerl.bak/pkg-plist p5-AcePerl/pkg-plist
--- p5-AcePerl.bak/pkg-plist Fri Jul 28 15:16:10 2000
+++ p5-AcePerl/pkg-plist Mon Oct 9 16:56:09 2000
@@ -1,73 +1,86 @@
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Ace.bs
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Ace.so
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Freesubs.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Iterator.pm
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Local.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/Feature.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/Multi.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/FeatureList.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/Homol.pm
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Model.pm
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Object.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Iterator.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/RPC.pm
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/Feature.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/FeatureList.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/Homol.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence/Multi.pm
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/SocketServer.pm
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/GFF/Filehandle.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/fetch_many.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/auto_save.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/date_style.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/comment.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/isComment.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/.packlist
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Freesubs/Freesubs.bs
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Freesubs/Freesubs.so
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asAce.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asHTML.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asTable.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asXML.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_default_makeHTML.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_insert.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_special_dump.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_to_ace_date.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/date_style.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/add_row.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/delete.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asPeptide.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/add_tree.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asHTML.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/timestamp.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asAce.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asTable.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asTable.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asString.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/replace.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/debug.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_asAce.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_default_makeHTML.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/isTimestamp.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/tags.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asDNA.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asGif.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_special_dump.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asHTML.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/_insert.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/kill.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/rollback.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asDNA.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asPeptide.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asString.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asTable.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/asXML.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/autosplit.ix
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/comment.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/commit.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/status.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/parse_file.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/class_count.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/layout.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/parse.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/pick.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/date_style.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/debug.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/delete.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/escapeXML.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/isComment.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/kill.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/replace.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/rollback.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/tags.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object/timestamp.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/RPC/RPC.bs
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/RPC/RPC.so
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Sequence/Feature/autosplit.ix
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Sequence/autosplit.ix
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/grep.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/put.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/new.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/classes.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/_unregister_iterator.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/_register_iterator.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/_restore_iterator.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/_save_iterator.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/_unregister_iterator.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/auto_save.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/autosplit.ix
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/class_count.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/classes.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/count.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/date_style.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/fetch_many.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/find.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/freeprotect.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/grep.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/layout.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/new.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/parse.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/parse_file.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/parse_longtext.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/pick.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/ping.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/count.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/autosplit.ix
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/put.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/split.al
+lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/status.al
lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/timestamps.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/parse_longtext.al
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace.pm
-lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/.packlist
-@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence
-@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace
-@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/GFF
@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Sequence/Feature
@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Sequence
+@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/RPC
@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Object
+@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace/Freesubs
@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/auto/Ace
+@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/GFF
+@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace/Sequence
+@dirrm lib/perl5/site_perl/%%PERL_VER%%/%%PERL_ARCH%%/Ace
>Release-Note:
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