spectrast + non zero padded scan numbers = scan not imported

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loblum

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Dec 17, 2012, 9:00:00 AM12/17/12
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Hi there

I have a problem when running spectrast on a pepxml file

spectrast -cP0.8 interact.pep.xml

[...]
PEPXML IMPORT: Cannot find MS2+ scan #9972 in file "/cluster/home/biol/loblum/test.mzXML". Scan not imported.
PEPXML IMPORT: Cannot find MS2+ scan #9993 in file "/cluster/home/biol/loblum/test.mzXML". Scan not imported.


However, If I go into the source file and add padding zeroes (for example
<spectrum_query spectrum="testfile.9993.9993.2" start_scan="9993" end_scan="9993" precursor_neutral_mass="903.465026855469" assumed_charge="2" index="3513">
to
<spectrum_query spectrum="testfile.09993.09993.2" start_scan="9993" end_scan="9993" precursor_neutral_mass="903.465026855469" assumed_charge="2" index="3513">)
spectrast works fine.

Can you confirm this? A bug? What happens if I have more than 99,999 scans??

Cheers,
Lorenz
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