From owner-freebsd-ports-bugs@FreeBSD.ORG Sat Jun 21 00:10:05 2008 Return-Path: Delivered-To: freebsd-ports-bugs@hub.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:4f8:fff6::34]) by hub.freebsd.org (Postfix) with ESMTP id 2EEE91065678 for ; Sat, 21 Jun 2008 00:10:05 +0000 (UTC) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (freefall.freebsd.org [IPv6:2001:4f8:fff6::28]) by mx1.freebsd.org (Postfix) with ESMTP id 0A1388FC13 for ; Sat, 21 Jun 2008 00:10:05 +0000 (UTC) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (gnats@localhost [127.0.0.1]) by freefall.freebsd.org (8.14.2/8.14.2) with ESMTP id m5L0A4a1076215 for ; Sat, 21 Jun 2008 00:10:04 GMT (envelope-from gnats@freefall.freebsd.org) Received: (from gnats@localhost) by freefall.freebsd.org (8.14.2/8.14.1/Submit) id m5L0A4qA076214; Sat, 21 Jun 2008 00:10:04 GMT (envelope-from gnats) Date: Sat, 21 Jun 2008 00:10:04 GMT Message-Id: <200806210010.m5L0A4qA076214@freefall.freebsd.org> To: freebsd-ports-bugs@FreeBSD.org From: dfilter@FreeBSD.ORG (dfilter service) Cc: Subject: Re: ports/124525: commit references a PR X-BeenThere: freebsd-ports-bugs@freebsd.org X-Mailman-Version: 2.1.5 Precedence: list Reply-To: dfilter service List-Id: Ports bug reports List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sat, 21 Jun 2008 00:10:05 -0000 The following reply was made to PR ports/124525; it has been noted by GNATS. From: dfilter@FreeBSD.ORG (dfilter service) To: bug-followup@FreeBSD.org Cc: Subject: Re: ports/124525: commit references a PR Date: Sat, 21 Jun 2008 00:02:02 +0000 (UTC) lippe 2008-06-21 00:01:57 UTC FreeBSD ports repository Modified files: biology Makefile Added files: biology/ssaha Makefile distinfo pkg-descr pkg-plist biology/ssaha/files patch-GlobalDefinitions.cpp patch-GlobalDefinitions.h patch-HashTable.cpp patch-HashTableGeneric.cpp patch-HashTablePacked.cpp patch-HashTablePacked.h patch-HashTableTranslated.cpp patch-MatchAligner.cpp patch-MatchAligner.h patch-MatchStore.h patch-MatchStoreGapped.h patch-MatchStoreUngapped.h patch-QueryManager.cpp patch-QueryManager.h patch-README patch-SSAHAMain.cpp patch-SSAHAMain.h patch-SequenceEncoder.cpp patch-SequenceReader.cpp patch-SequenceReader.h patch-SequenceReaderFasta.cpp patch-SequenceReaderFasta.h patch-SequenceReaderFilter.h patch-SequenceReaderLocal.cpp patch-SequenceReaderMulti.cpp patch-SequenceReaderMulti.h patch-SequenceReaderString.h patch-makefile patch-testHashTableNoOverlap.cpp patch-testQueryManager.cpp patch-testSequenceReaderFasta.cpp Log: SSAHA is a software tool for very fast matching and alignment of DNA sequences. It stands for Sequence Search and Alignment by Hashing Algorithm. It achieves its fast search speed by converting sequence information into a `hash table' data structure, which can then be searched very rapidly for matches. WWW: http://www.sanger.ac.uk/Software/analysis/SSAHA/ PR: ports/124525 Submitted by: Fernan Aguero Approved by: gabor (mentor, implicit) Revision Changes Path 1.102 +1 -0 ports/biology/Makefile 1.1 +33 -0 ports/biology/ssaha/Makefile (new) 1.1 +3 -0 ports/biology/ssaha/distinfo (new) 1.1 +11 -0 ports/biology/ssaha/files/patch-GlobalDefinitions.cpp (new) 1.1 +82 -0 ports/biology/ssaha/files/patch-GlobalDefinitions.h (new) 1.1 +20 -0 ports/biology/ssaha/files/patch-HashTable.cpp (new) 1.1 +48 -0 ports/biology/ssaha/files/patch-HashTableGeneric.cpp (new) 1.1 +29 -0 ports/biology/ssaha/files/patch-HashTablePacked.cpp (new) 1.1 +16 -0 ports/biology/ssaha/files/patch-HashTablePacked.h (new) 1.1 +77 -0 ports/biology/ssaha/files/patch-HashTableTranslated.cpp (new) 1.1 +94 -0 ports/biology/ssaha/files/patch-MatchAligner.cpp (new) 1.1 +33 -0 ports/biology/ssaha/files/patch-MatchAligner.h (new) 1.1 +54 -0 ports/biology/ssaha/files/patch-MatchStore.h (new) 1.1 +25 -0 ports/biology/ssaha/files/patch-MatchStoreGapped.h (new) 1.1 +13 -0 ports/biology/ssaha/files/patch-MatchStoreUngapped.h (new) 1.1 +54 -0 ports/biology/ssaha/files/patch-QueryManager.cpp (new) 1.1 +19 -0 ports/biology/ssaha/files/patch-QueryManager.h (new) 1.1 +13 -0 ports/biology/ssaha/files/patch-README (new) 1.1 +48 -0 ports/biology/ssaha/files/patch-SSAHAMain.cpp (new) 1.1 +19 -0 ports/biology/ssaha/files/patch-SSAHAMain.h (new) 1.1 +75 -0 ports/biology/ssaha/files/patch-SequenceEncoder.cpp (new) 1.1 +20 -0 ports/biology/ssaha/files/patch-SequenceReader.cpp (new) 1.1 +11 -0 ports/biology/ssaha/files/patch-SequenceReader.h (new) 1.1 +32 -0 ports/biology/ssaha/files/patch-SequenceReaderFasta.cpp (new) 1.1 +11 -0 ports/biology/ssaha/files/patch-SequenceReaderFasta.h (new) 1.1 +20 -0 ports/biology/ssaha/files/patch-SequenceReaderFilter.h (new) 1.1 +28 -0 ports/biology/ssaha/files/patch-SequenceReaderLocal.cpp (new) 1.1 +30 -0 ports/biology/ssaha/files/patch-SequenceReaderMulti.cpp (new) 1.1 +13 -0 ports/biology/ssaha/files/patch-SequenceReaderMulti.h (new) 1.1 +26 -0 ports/biology/ssaha/files/patch-SequenceReaderString.h (new) 1.1 +15 -0 ports/biology/ssaha/files/patch-makefile (new) 1.1 +178 -0 ports/biology/ssaha/files/patch-testHashTableNoOverlap.cpp (new) 1.1 +20 -0 ports/biology/ssaha/files/patch-testQueryManager.cpp (new) 1.1 +171 -0 ports/biology/ssaha/files/patch-testSequenceReaderFasta.cpp (new) 1.1 +11 -0 ports/biology/ssaha/pkg-descr (new) 1.1 +9 -0 ports/biology/ssaha/pkg-plist (new) _______________________________________________ cvs-all@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/cvs-all To unsubscribe, send any mail to "cvs-all-unsubscribe@freebsd.org"