From owner-freebsd-ports-bugs@FreeBSD.ORG Tue Jun 22 13:31:30 2004 Return-Path: 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 3A43416A4CE for ; Tue, 22 Jun 2004 13:31:30 +0000 (GMT) Received: from freefall.freebsd.org (freefall.freebsd.org [216.136.204.21]) by mx1.FreeBSD.org (Postfix) with ESMTP id 1DA7743D41 for ; Tue, 22 Jun 2004 13:31:30 +0000 (GMT) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (gnats@localhost [127.0.0.1]) i5MDUQoi055937 for ; Tue, 22 Jun 2004 13:30:26 GMT (envelope-from gnats@freefall.freebsd.org) Received: (from gnats@localhost) by freefall.freebsd.org (8.12.11/8.12.11/Submit) id i5MDUQ00055936; Tue, 22 Jun 2004 13:30:26 GMT (envelope-from gnats) Resent-Date: Tue, 22 Jun 2004 13:30:26 GMT Resent-Message-Id: <200406221330.i5MDUQ00055936@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, Fernan Aguero Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125]) by hub.freebsd.org (Postfix) with ESMTP id B04EF16A4CE; Tue, 22 Jun 2004 13:24:40 +0000 (GMT) Received: from smtp.unsam.edu.ar (smtp.unsam.edu.ar [170.210.48.3]) by mx1.FreeBSD.org (Postfix) with ESMTP id AC1C743D46; Tue, 22 Jun 2004 13:24:38 +0000 (GMT) (envelope-from fernan@pi.iib.unsam.edu.ar) Received: from pi.iib.unsam.edu.ar (pi.iib.unsam.edu.ar [192.168.10.11]) by smtp.unsam.edu.ar (8.12.6/8.12.6) with ESMTP id i5MDMYX8038651; Tue, 22 Jun 2004 10:22:34 -0300 (ART) (envelope-from fernan@pi.iib.unsam.edu.ar) Received: from pi.iib.unsam.edu.ar (localhost.iib.unsam.edu.ar [127.0.0.1]) by pi.iib.unsam.edu.ar (8.12.11/8.12.9) with ESMTP id i5MDJFrc096130; Tue, 22 Jun 2004 10:19:15 -0300 (ART) (envelope-from fernan@pi.iib.unsam.edu.ar) Received: (from fernan@localhost) by pi.iib.unsam.edu.ar (8.12.11/8.12.11/Submit) id i5MDJFx9096129; Tue, 22 Jun 2004 10:19:15 -0300 (ART) (envelope-from fernan) Message-Id: <200406221319.i5MDJFx9096129@pi.iib.unsam.edu.ar> Date: Tue, 22 Jun 2004 10:19:15 -0300 (ART) From: Fernan Aguero To: FreeBSD-gnats-submit@FreeBSD.org X-Send-Pr-Version: 3.113 cc: wjv@FreeBSD.org Subject: ports/68199: fix biology/fasta3 and take maintainership X-BeenThere: freebsd-ports-bugs@freebsd.org X-Mailman-Version: 2.1.1 Precedence: list Reply-To: Fernan Aguero List-Id: Ports bug reports List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Tue, 22 Jun 2004 13:31:30 -0000 >Number: 68199 >Category: ports >Synopsis: fix biology/fasta3 and take maintainership >Confidential: no >Severity: serious >Priority: high >Responsible: freebsd-ports-bugs >State: open >Quarter: >Keywords: >Date-Required: >Class: update >Submitter-Id: current-users >Arrival-Date: Tue Jun 22 13:30:23 GMT 2004 >Closed-Date: >Last-Modified: >Originator: Fernan Aguero >Release: FreeBSD 4.10-RELEASE i386 >Organization: IIB-UNSAM >Environment: FreeBSD pi.iib.unsam.edu.ar 4.10-RELEASE FreeBSD 4.10-RELEASE #0: Wed May 26 12:56:43 ART 2004 fernan@pi.iib.unsam.edu.ar:/usr/obj/usr/src/sys/PI i386 >Description: biology/fasta3 was marked as BROKEN due to a checksum mismatch. It is now scheduled for removal on August 20. I am now fixing the build problems and asking for maintainership of the port. Johann (the current maintainer) has not been very active lately and he already has agreed on me taking maintainership of other biology/ ports (p5-bioperl, emboss (which BTW I still have to finish)). Although there are new versions of fasta3 (see ftp://ftp.virginia.edu/pub/fasta/), in this PR I am just fixing the problems with fasta33t08d4. I don't know what could have changed in the files, since the version has remained the same ... so the answer about the change in checksum is: I really don't know what caused the checksum mismatch. I've checked the pkg-plist and nothing new is installed ... so to fix it I just went to ftp://ftp.virginia.edu/pub/fasta/, downloaded fasta33t08d4.shar.Z and updated the distinfo file accordingly. Now everything builds and installs fine. I hope this is enough to save the port. I am planning to update it soon to the latest version (fasta34t24b1). But that will be in another PR :) >How-To-Repeat: >Fix: --- Makefile.diff begins here --- --- /usr/ports/biology/fasta3/Makefile Sat Feb 28 01:03:30 2004 +++ Makefile Tue Jun 22 10:02:29 2004 @@ -8,14 +8,12 @@ PORTNAME= fasta3 PORTVERSION= 33.t08.d4 CATEGORIES= biology -MASTER_SITES= http://ftp.virginia.edu/pub/fasta/ +MASTER_SITES= ftp://ftp.virginia.edu/pub/fasta/ DISTNAME= fasta${PORTVERSION:S/.//g} EXTRACT_SUFX= .shar.Z -MAINTAINER= wjv@FreeBSD.org +MAINTAINER= fernan@iib.unsam.edu.ar COMMENT= A collection of programs for searching DNA and protein databases, v3 - -BROKEN= "Checksum mismatch" NO_CDROM= May not be sold or incorporated into a commercial product WRKSRC= ${WRKDIR}/fasta3 --- Makefile.diff ends here --- --- distinfo.diff begins here --- --- /usr/ports/biology/fasta3/distinfo Sat Apr 3 01:03:35 2004 +++ distinfo Tue Jun 22 09:49:44 2004 @@ -1,2 +1,2 @@ -MD5 (fasta33t08d4.shar.Z) = 66f0c4731a6ff1cf123067c6ec46e352 -SIZE (fasta33t08d4.shar.Z) = 690366 +MD5 (fasta33t08d4.shar.Z) = e6217268e122b2ca7c51b443425e40e3 +SIZE (fasta33t08d4.shar.Z) = 685912 --- distinfo.diff ends here --- >Release-Note: >Audit-Trail: >Unformatted: