I am using TPP v5.1.0 Syzygy, Build 201711031215-7670 (Windows_NT-x86_64). I'll give Firefox a try.
Best, Adam On Friday, August 31, 2018 at 7:02:58 PM UTC-5, David Shteynberg wrote: > > I would not recommend using the 0.05% cutoff. I was able to open your > file and apply same filters you applied. I am using Firefox browser. > Which version of the TPP are you using? > > Thanks, > -David > > On Fri, Aug 31, 2018 at 3:33 PM, Adam Rabalski <raba...@gmail.com > <javascript:>> wrote: > >> Hi David, >> >> Yes this is the file. Briefly, I would open it and after a few minutes >> once loaded in Chrome I filter using an iProphet cutoff of 0.7360 and a >> text filter for 478.99|480.99 modification (subscript checked on). Trying >> to display all entries, or attempting to export to a spreadsheet results in >> the error warning. I'm running another analysis currently with a 0.05 >> cutoff. What browser are you using? >> >> Best, >> >> Adam >> >> On Friday, August 31, 2018 at 5:25:27 PM UTC-5, David Shteynberg wrote: >>> >>> Hello Adam, >>> >>> I have not been able to replicate the issue you observed on the file you >>> gave me. Are you sure that the file you posted is the one showing up with >>> the error? >>> >>> Thanks, >>> -David >>> >>> On Fri, Aug 31, 2018 at 2:03 PM, Adam Rabalski <raba...@gmail.com> >>> wrote: >>> >>>> 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 spctools-discu...@googlegroups.com. >>>> To post to this group, send email to spctools...@googlegroups.com. >>>> Visit this group at https://groups.google.com/group/spctools-discuss. >>>> For more options, visit https://groups.google.com/d/optout. >>>> >>> >>> -- >> 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-discu...@googlegroups.com <javascript:>. >> To post to this group, send email to spctools...@googlegroups.com >> <javascript:>. >> Visit this group at https://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > > -- 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 post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
