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MS Pipeline cannot accept mass spectra file with additional period

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MS Pipeline cannot accept mass spectra file with additional period wongch  2006-02-14 02:13
Status: Closed
 
The 3 replicates generate mass spectra files name "P1.1.mzXML", "P1.2.mzXML", and "P1.3.mzXML". When processing these files thru' the ms mini-pipeline, I get trap in the "Describe MS2 Run" page as the status check fails on the P1.xar.log and P1.xar.xml rather than P1.1.xar.log and P1.1.xar.xml.

Code traced to org.fhcrc.cpas.ms2.pipeline.MS2PipelineManager's getBasename() method use of indexOf() rather than lastIndexOf().
 
 
brendanx responded:  2006-02-14 07:11
Thanks. I'll take a close look at the use of this function. I am pretty sure it currently gets used for files with extensions like .pep.xml as well as .mzXML.

But, you are correct that I should not be depending on the "basename" not containing extra periods.

I'll try to get this fixed for 1.2.
 
adam responded:  2007-01-03 13:35