From owner-svn-ports-head@FreeBSD.ORG Sun Dec 28 21:59:24 2014 Return-Path: Delivered-To: svn-ports-head@freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) (using TLSv1.2 with cipher AECDH-AES256-SHA (256/256 bits)) (No client certificate requested) by hub.freebsd.org (Postfix) with ESMTPS id 2516A4ED for ; Sun, 28 Dec 2014 21:59:24 +0000 (UTC) Received: from mail-ig0-f169.google.com (mail-ig0-f169.google.com [209.85.213.169]) (using TLSv1 with cipher ECDHE-RSA-RC4-SHA (128/128 bits)) (Client CN "smtp.gmail.com", Issuer "Google Internet Authority G2" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id DE1822DF3 for ; Sun, 28 Dec 2014 21:59:23 +0000 (UTC) Received: by mail-ig0-f169.google.com with SMTP id hl2so11722551igb.4 for ; Sun, 28 Dec 2014 13:59:17 -0800 (PST) X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20130820; h=x-gm-message-state:message-id:date:from:user-agent:mime-version:to :cc:subject:references:in-reply-to:content-type :content-transfer-encoding; bh=gAVvSkL9DlCPG+EU6z9BOuZYi0GJ32/8/OgJ5/4kAsk=; b=mBW7opKbgbMLtxuI4ZxS34VtOKdp30gAwMYd4+YZg6EKnb5VGiDR2cSnFeDvPCouxs tGVkAwjEkxQvLWJpc3uLshjJZesK2MITEB/8Q3I963dKC13j22J9CDN9FUQy/F+9iYGo I88VAqJBsxJte58HdNWvs9JuGvjqLBLqiUzIB9wTlDQLPS5/hlJy1tGsMMubr63WcxiA pBnEMrnRixw29jPkwF2clwXPW3lauXcRD558gUGmeQL2mrJPNRCiFnqltf/WiLr3FDxX rlWgTZ+KTo53f+7sR4GFN/WS7dLGmC8u4xzcwU6lePurAC8e9IvidiPlfkLNy8NVz0tf q0Ug== X-Gm-Message-State: ALoCoQlqHXNTHE4M+6lu1MA1ixTSxrRs5DDmiJXmJeo2PmU61z+E9HDCBx4GJgrvSCY0Asl4qhNq X-Received: by 10.107.3.162 with SMTP id e34mr47510393ioi.55.1419803957737; Sun, 28 Dec 2014 13:59:17 -0800 (PST) Received: from [192.168.0.52] (h69-131-102-7.nwblwi.broadband.dynamic.tds.net. [69.131.102.7]) by mx.google.com with ESMTPSA id mv6sm13515053igb.10.2014.12.28.13.59.15 (version=TLSv1.2 cipher=ECDHE-RSA-AES128-GCM-SHA256 bits=128/128); Sun, 28 Dec 2014 13:59:17 -0800 (PST) Message-ID: <54A07D32.6010401@tds.net> Date: Sun, 28 Dec 2014 15:59:14 -0600 From: Jason Bacon User-Agent: Mozilla/5.0 (Macintosh; Intel Mac OS X 10.6; rv:31.0) Gecko/20100101 Thunderbird/31.0 MIME-Version: 1.0 To: Michael Gmelin , "marino@freebsd.org" Subject: Re: svn commit: r370220 - in head/biology: . ncbi-blast References: <201410062016.s96KGZP8084850@svn.freebsd.org> <86r3vjg054.fsf@nine.des.no> <54A04955.3010601@marino.st> <86387zfur3.fsf@nine.des.no> <54A05AB7.3020200@marino.st> <86sifzef1i.fsf@nine.des.no> <54A05E8E.20802@marino.st> <0E188BDF-EBCD-4849-B329-C7109A52BD33@freebsd.org> In-Reply-To: <0E188BDF-EBCD-4849-B329-C7109A52BD33@freebsd.org> Content-Type: text/plain; charset=utf-8; format=flowed Content-Transfer-Encoding: 8bit Cc: "svn-ports-head@freebsd.org" , =?UTF-8?B?RGFnLUVybGluZyBTbcO4cmdyYXY=?= , "svn-ports-all@freebsd.org" , "ports-committers@freebsd.org" X-BeenThere: svn-ports-head@freebsd.org X-Mailman-Version: 2.1.18-1 Precedence: list List-Id: SVN commit messages for the ports tree for head List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sun, 28 Dec 2014 21:59:24 -0000 On 12/28/14 2:08 PM, Michael Gmelin wrote: > > >> On 28 Dec 2014, at 20:48, John Marino wrote: >> >>> On 12/28/2014 20:43, Dag-Erling Smørgrav wrote: >>> John Marino writes: >>>> Dag-Erling Smørgrav writes: >>>>> The original BLAST is at 2.2.26, while BLAST+ is at 2.2.30. >>>> so what? a PORTEPOCH is matched to a specific package name. >>> Yes, and this name cannot be used for the original BLAST program without >>> bumping PORTEPOCH. This port should have been named ncbi-blast-plus or >>> something similar. >> This is just an opinion. There is no technical basis for bumping >> PORTEPOCH. To boil this down, you are saying the port has a misleading >> name and should have been named something else by Jason who submitted >> the PR to add the port. >> > Just to add my 2 cents: > > I don't really follow the argument of bumping portepoch (it's not a very explicit way of stating that this is not the original version - IMHO it's actually not what portepoch is about). > > Based on the arguments I've seen I think renaming the port to ncbi-blast-plus is the best solution - also for future users of the port. > > - Michael Feel free if you want to rename it. I considered adding '+' to the name when I created the port, but decided it was redundant since this is the only BLAST* implementation under development by NCBI. Given that the legacy NCBI blast is available as biology/ncbi-toolkit, the new NCBI BLAST+ port is uniquely identified by either ncbi-blast or ncbi-blast-plus. I would argue that all BLAST* ports should be prefixed to indicate the specific implementation, e.g. ncbi-blast, wu-blast, etc. JB -- ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Jason W. Bacon jwbacon@tds.net Circumstances don't make a man: They reveal him. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~