Hello, The version of msconvert that is shipped with TPP is a couple of years old and does not know about that instrument. You have three options to convert your files:
1. Download and install a newer version of ProteoWizard, run the conversion, and use that mzML file in Comet. This is likely the simplest and most expedient. 2. Use the command-line to convert the file, using the --ignoreUnknownInstrumentError flag, for example: msconvert.exe --ignoreUnknownInstrumentError c:\TPP\data\TMT_Microbiome\Xu_20210512_IRIstudy_Concentration_TMT_Plate1_D.raw 3. We will be releasing a new version of TPP later this week. If you are able to wait, then just update to the new version, which includes a more recent version of msconvert. This is recommended as long as you can wait a few days to process your data. Hope this helps, --Luis On Mon, Feb 13, 2023 at 8:32 AM Aarthie Senathirajah < animallover....@gmail.com> wrote: > Hi I'm currently trying to analyze the raw files from this metaproteomic > dataset of the human gut microbiome. Which uses maxquant usually but i > would like to use Comet. > Firstly I am getting this error when trying to convert the raw file into > mzml > processing file: > c:/TPP/data/TMT_Microbiome\Xu_20210512_IRIstudy_Concentration_TMT_Plate1_D.raw > [Reader_Thermo::fillInMetadata] unable to parse instrument model; please > report this error to the ProteoWizard developers with this information: > model(Orbitrap Exploris 480) name(Orbitrap Exploris Slot #162); if want to > convert the file anyway, use the ignoreUnknownInstrumentError flag > > > Which I'm not sure how to solve.. Any help would be great! > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to spctools-discuss+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/spctools-discuss/ed16c06b-a6c5-4f68-ac69-d96c5b95092fn%40googlegroups.com > <https://groups.google.com/d/msgid/spctools-discuss/ed16c06b-a6c5-4f68-ac69-d96c5b95092fn%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to spctools-discuss+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/CACyS9bqh4-r%3Dwufa_DVTZ7B%2BoyX1uWFAsZbCy81XUqka_NJXGQ%40mail.gmail.com.
