ports/124525: commit references a PR

[dfilter service]

The following reply was made to PR ports/124525; it has been noted by GNATS.

From: dfilter at FreeBSD.ORG (dfilter service)
To: bug-followup at 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 <fernan at iib.unsam.edu.ar>
   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)
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