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Re: magetab2magerdf

From: Jim McCusker <james.mccusker@yale.edu>
Date: Wed, 6 Jan 2010 12:36:39 -0500
Message-ID: <68084f3e1001060936v7a6c7f7cqb0d58dda1bb4b95e@mail.gmail.com>
To: Michael Miller <mmiller@teranode.com>
Cc: w3c semweb HCLS <public-semweb-lifesci@w3.org>
On Wed, Jan 6, 2010 at 12:18 PM, Michael Miller <mmiller@teranode.com>wrote:

>  "Unless I have a bug, ..."
> pretty sure you do, especially since there is no 'Array Data Matrix File'
> column in the SDRF plus none of the raw data file names in the ArrayExpress
> zip file appear to be referenced in the RDF (or at least the one i checked)
> and the referenced raw file in the RDF doesn't exist in Array Express for
> that experiment.
>

A closer look at the SDRF reveals these columns:

Array Data Matrix File
E-MEXP-986-raw-data-1321832728.txt
E-MEXP-986-raw-data-1321832722.txt
E-MEXP-986-raw-data-1321832716.txt
E-MEXP-986-raw-data-1321832734.txt

and

Derived Array Data Matrix File
E-MEXP-986-processed-data-1343528010.txt
E-MEXP-986-processed-data-1343528012.txt
E-MEXP-986-processed-data-1343528010.txt
E-MEXP-986-processed-data-1343528012.txt

I used
http://magetab2rdf.googlecode.com/svn/trunk/magetab2magerdf/examples/E-MEXP-986/E-MEXP-986.sdrf.txtas
the SDRF for that accession. Am I missing something?

Jim
--
Jim McCusker
Programmer Analyst
Krauthammer Lab, Pathology Informatics
Yale School of Medicine
james.mccusker@yale.edu | (203) 785-6330
http://krauthammerlab.med.yale.edu

PhD Student
Tetherless World Constellation
Rensselaer Polytechnic Institute
mccusj@cs.rpi.edu
http://tw.rpi.edu
Received on Wednesday, 6 January 2010 17:37:33 UTC

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