<x-charset iso-8859-1>Dear DNAseq'ers,
since some time we have the problem that our 3700 crashes during data extraction. All data (as far as we know) from the run in question are lost, and a complete database purge is required to get the instrument back to work. Initially, we thought that the crashes were unpredictable (as did the Abi service).
Now, we have traced the problem down to our comment text in the "Comment" column of the plt file. We use this field to transfer information from our LIMS to the sequence trace (!) file for subsequent automatic analysis of the data, and the length did increase over time when more information was transferred in an easy-parsable (and human-readable) way. An example of an informative plt file is shown here:
http://adis.mpiz-koeln.mpg.de/Adis/Example-Gels/3700-DataExtr-comments.html
This file is really informative because the data extractor (Collection-Software 1.1; Sequencing-Analysis 3.6) did work until probe E09, but failed with F09. The error message is 'orbix not enough memory'. The difference between E09 and F09 is three characters more in the comments of F09.
Has anybody else seen this problem? Is there any hint in the documentation about a length limt of the comments field (we did not find such hints)? The Abi service was in this special case unable to give any further information. Has anyone found a trick to circumvent the problem?
Obviously, we can try to limit the length of the text. But since the information transfer via the trace file itself is very convinient in terms of data integrity, and because human readability is also useful (I do not want to compress the info in a way like "chmod 771" on UNIX), I would like to have the bug removed to allow more characters in the comments fields.
Thanks is advance, Bernd
-- _____________________________________________________________________ PD Dr. Bernd Weisshaar MPI fuer Zuechtungsforschung (english: MPI for Plant Breeding Research) Carl-von-Linné-Weg 10 50829 Koeln GermanyTel. office: +49-221-5062 850 Tel. lab: +49-221-5062 860 Fax: +49-221-5062 851 mailto:weisshaa@mpiz-koeln.mpg.de WWW-URL: http://www.mpiz-koeln.mpg.de/~weisshaa/BW-info.html
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