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ProteoWizard / pwiz

The ProteoWizard Library is a set of software libraries and tools for rapid development of mass spectrometry and proteomic data analysis software.
http://proteowizard.sourceforge.net/
Apache License 2.0
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Error converting .wiff2 format to .mzML format #3127

Open renkedawei opened 3 weeks ago

renkedawei commented 3 weeks ago

I used the SCIEX X500R instrument to obtain the raw data in.wiff2 format, but when I used msconvert to convert it, it reported an error. Here are the details of the error:

[Reader_ABI::fillInMetadata] unable to determine instrument model ([WiffFile2Impl::getInstrumentModel()] 未将对象引用设置到对象的实例。)
[Reader_ABI::fillInMetadata] unable to read instrument serial number ([WiffFile2Impl::getInstrumentSerialNumber()] 未将对象引用设置到对象的实例。)
[Reader_ABI::fillInMetadata] unable to read sample acquisition time ([WiffFile2Impl::getSampleAcquisitionTime()] String 引用没有设置为 String 的实例。
Calculating SHA1 checksum...
Processing...
Failed - System.Exception: [Spectrum2Impl::getDataSize()] null spectrum
   在 pwiz.CLI.msdata.SpectrumList.empty()
   在 MSConvertGUI.MainLogic.processFile(String filename, Config config, ReaderList readers, Map`2 usedOutputFilenames)
   在 MSConvertGUI.MainLogic.Go(Config config, Map`2 usedOutputFilenames)
chambm commented 3 weeks ago

It's hard to imagine this isn't a corrupt file, or at least a corrupt sample. Can you share the file?

renkedawei commented 3 weeks ago

It's hard to imagine this isn't a corrupt file, or at least a corrupt sample. Can you share the file?

I have sent the file to your email address (matt.chambers42@gmail.com), thank you for your timely reply!