From owner-freebsd-ports Tue Feb 27 12:40:12 2001 Delivered-To: freebsd-ports@hub.freebsd.org Received: from freefall.freebsd.org (freefall.freebsd.org [216.136.204.21]) by hub.freebsd.org (Postfix) with ESMTP id 9193037B71D for ; Tue, 27 Feb 2001 12:40:01 -0800 (PST) (envelope-from gnats@FreeBSD.org) Received: (from gnats@localhost) by freefall.freebsd.org (8.11.1/8.11.1) id f1RKe1m36632; Tue, 27 Feb 2001 12:40:01 -0800 (PST) (envelope-from gnats) Received: from nil.science-factory.com (Sciencefactory-atm1-181.piro.net [195.135.137.205]) by hub.freebsd.org (Postfix) with ESMTP id 7ECB537B719 for ; Tue, 27 Feb 2001 12:35:03 -0800 (PST) (envelope-from marc.vanwoerkom@science-factory.com) Received: (from mvw@localhost) by nil.science-factory.com (8.11.1/8.11.1) id f1RKXgj01741; Tue, 27 Feb 2001 21:33:42 +0100 (CET) (envelope-from marc.vanwoerkom@science-factory.com) Message-Id: <200102272033.f1RKXgj01741@nil.science-factory.com> Date: Tue, 27 Feb 2001 21:33:42 +0100 (CET) From: marc.vanwoerkom@science-factory.com To: FreeBSD-gnats-submit@freebsd.org Subject: ports/25423: Category "biology" is not sufficient Sender: owner-freebsd-ports@FreeBSD.ORG Precedence: bulk X-Loop: FreeBSD.org >Number: 25423 >Category: ports >Synopsis: The "biology" category holds programs from chemistry, physics and bio informatics >Confidential: no >Severity: serious >Priority: medium >Responsible: freebsd-ports >State: open >Quarter: >Keywords: >Date-Required: >Class: change-request >Submitter-Id: current-users >Arrival-Date: Tue Feb 27 12:40:01 PST 2001 >Closed-Date: >Last-Modified: >Originator: Marc van Woerkom >Release: FreeBSD 5.0-CURRENT i386 >Organization: >Environment: System: FreeBSD nil.science-factory.com 5.0-CURRENT FreeBSD 5.0-CURRENT #0: Thu Dec 7 18:17:37 CET 2000 mvw@nil.science-factory.com:/usr/obj/usr/src/sys/NIL i386 >Description: Dear porters, the present contents of the "biology" category is getting a bit inappropriate. IMHO the "biology" category should be accompained by at least a "chemistry" category and possibly a "physics" category at some point in the future as well. Hard thing is, that most stuff fits some inbetween role, like "physical chemistry" or "biochemistry", and lately the part of biochemistry that deals with the computational aspects of genetics has spawned a field called "bioinformatics". (I studied physics and worked in a "cheminformatics" company and now in a bio informatics company :) Let's look what populates "biology" right now, and where I would rather like to see the stuff: babel molecular files -> fits chemistry as well biojava this rather bioinformatics (thus mostly computational genetics, biochemistry) than biology chemeq -> chemistry clustalw -> bioinformatics deft -> chemistry, physics emboss -> bioinformatics fasta -> bioinformatics fasta3 -> bioinformatics fastdnaml -> bioinformatics, biology gaussian98 -> chemistry, physics gperiodic -> chemistry hmmer -> bioinformatics kinemage -> chemistry, physics molden -> chemistry mopac -> chemistry, physics nab -> bioinformatics ncbi-toolkit -> bioinformatics, biology ortep3 -> physics, chemistry p5-AcePerl -> bioinformatics p5-bioperl -> bioinformatics paml -> bioinformatics phylip -> bioinformatics, biology platon -> physics, chemistry povchem -> chemistry, graphics psi88 -> physics, chemistry py-biopython -> bioinformatics rasmol -> bioinformatics seaview -> bioinformatics sim4 -> bioinformatics tinker -> chemistry, physics xdrawchem -> chemistry xmolwt -> chemistry It must not be this scheme, but I hope I have illustrated, that just "biology" getting all those ports is not a good choice. Example I would rather look under "graphics" or "chemistry" for the "povchem" ray tracer package. >How-To-Repeat: >Fix: Discuss, introduce new categories, fix existing categorization. :-) Regards, Marc >Release-Note: >Audit-Trail: >Unformatted: To Unsubscribe: send mail to majordomo@FreeBSD.org with "unsubscribe freebsd-ports" in the body of the message