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hey @chambm another user just reported another one for tool version 3.0.20287.2 I already asked for the data set.
had an exit code 1 with stderr:
Could not load wine-gecko. HTML rendering will be disabled.
Could not load wine-gecko. HTML rendering will be disabled.
wine: configuration in '/tmp/7580446.1.usvc/tmp.Y4mfRXkUZ3' has been updated.
and stdout
format: mzML
m/z: Compression-Zlib, 64-bit
intensity: Compression-Zlib, 32-bit
rt: Compression-Zlib, 64-bit
ByteOrder_LittleEndian
indexed="true"
outputPath: outputs
extension: .mzML
contactFilename:
runIndexSet: [0,0]
spectrum list filters:
chromatogram list filters:
filenames:
50_50_100a0a.raw
processing file: 50_50_100a0a.raw
[RawFileImpl::ctor()] Instrument index not available for requested device
Parameter name: instrumentIndex
The text was updated successfully, but these errors were encountered:
Command line for this job is msconvert '50_50_100a0a.raw' --outdir outputs --mzML --runIndexSet 0 --stripLocationFromSourceFiles --filter "peakPicking vendor msLevel=1-" --mz64 --inten32 --zlib --outfile '50_50_100a0a'
I increased the available memory for the tool (from 8 to 37GB) and now get:
[SpectrumList_Thermo::spectrum()] Error retrieving spectrum "controllerType=0 controllerNumber=1 scan=34161": [RawFileThreadImpl::getMassList()] Exception of type 'System.OutOfMemoryException' was thrown.
So it seems to be a memory problem. I have also increased the memory to 57GB without success. Do you have any experience how much memory is needed?
Its also odd that msconvert is quite idle most of the time. When looking it the output of the job stats it looks like its mostly doing memory operations:
wallclock 415.448
cpu 132.228
mem 1262.465
io 14.832
iow 0.680
ioops 1040100
hey @chambm another user just reported another one for tool version 3.0.20287.2 I already asked for the data set.
had an exit code 1 with stderr:
and stdout
The text was updated successfully, but these errors were encountered: