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List:       bioconductor
Subject:    Re: [BioC] hi unable to run annbuilder
From:       John Zhang <jzhang () jimmy ! harvard ! edu>
Date:       2002-11-21 21:52:01
Message-ID: 200211212152.QAA13152 () blaise ! dfci ! harvard ! edu
[Download RAW message or body]

>AnnBuilder requires Perl and PostgreSQL, among other things, to run.
>You probably would have to hack it up quite a bit to get things
>running on Windows (maybe Cygwin would work, but you have to deal with
>making sure that R doesn't deal with the Cygwin stuff, since there
>seem to be slight conflicts, i.e. Cygwin Perl vs. the Perl
>(ActiveState) that R "likes".

The basic functions described in AnnBuilder.Rnw do not require PostGreSQL 
(unless you want to write the output to a database) and run at a reasonab speed. 
Functions (described in ABOther.Rnw) that process data from Gene Ontology do 
require PostgreSQL. 

>
>I.e. it would be quite an undertaking; note that it works fairly well
>under Linux, so it might be faster (much longer computation run, but
>much faster programming/debugging time) to find an old PC for the
>task.
>
>best,
>-tony
>
>-- 
>A.J. Rossini				Rsrch. Asst. Prof. of Biostatistics
>U. of Washington Biostatistics		rossini@u.washington.edu	
>FHCRC/SCHARP/HIV Vaccine Trials Net	rossini@scharp.org
>-------------- http://software.biostat.washington.edu/ ----------------
>FHCRC: M: 206-667-7025 (fax=4812)|Voicemail is pretty sketchy/use Email
>UW:   Th: 206-543-1044 (fax=3286)|Change last 4 digits of phone to FAX
>(my tuesday/wednesday/friday locations are completely unpredictable.)
>
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