Harald Barsnes

@veitveit Just noticed that the Java error is also there when exporting via the GUI as well. It is just not highlighted in the same way (as it is basically...

@veitveit I was trying to look into that. Given that the export in the GUI completes successfully, and the error only occurs afterwards, I think the output file is complete....

Hi Michael, Yes! In fact, we have already talked about the option of adding Sage! I will try to get the time to dig a bit deeper next week and...

Hi again, I had a closer look at the possibility of adding Sage to SearchGUI and as far as I can see there should not be any major showstoppers. I...

Hi Mike, > A progress indicator could be added... I had one initially, but using a progress bar actually imposes significant overhead on search times. setting the SAGE_LOG=trace environment variable...

Yes, I think that should cover it. Not sure about the scan number. I guess we'll find out when trying to implement it. But maybe you can also keep the...

Here are the definitions from the mzML specification document: `id - xs:string (pattern: \S+=\S+( \S+=\S+)*) - The native identifier for a spectrum. For unmerged native spectra or spectra from older...

> Here are a few lines from an example file - let me know if this works! Thanks! I will look at it as soon as possible. I'll keep you...

> Here are a few lines from an example file - let me know if this works! Yes, it does! I've now implemented a parser for Percolator pin files in...

> I don't see any peptides with C[+57.0214] modifications - setting it as a variable mod in PeptideShaker seems to fix this though By default fixed modification are not shown....