Considering the size of the file, which editors/viewers do you use at ISB to open XML file in order to pinpoint a problem? I have re-run the analysis as I had 87 fractions and 10 of them were labelled with timestamps (occurs when XCalibur attempts to write a filename that already exists in a directory so it creates a new file with the date/time added on to it) so I changed these file names as I thought that this might be the problem because I could not view peptides beyond this fraction number but am still running into the same issue and have different "error with html display" pointing to different lines depending on how I filter the xml file. Would reducing the output size help here? The only thing that I can think of doing is increasing the PeptideProphet Probability filter to 0.05 from 0.00 (which I typically use) in order to reduce the number of entries written .
On Thursday, August 30, 2018 at 1:03:24 PM UTC-5, David Shteynberg wrote: > > The errors above suggest that the pepXML files are not parser compliant > and cannot be read. Sometimes this could be caused by bad characters in > the protein descriptions from the fasta database, you have to look at the > specific lines pointed to by the error messages to identify the exact > issue. If you can post your failing files and I can take a look. > > Thanks, > -David > -- 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 [email protected]. To post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
