Johannes Rainer

that would be something that has to be done on the `mzR` package by @sneumann - that's a delicate process.

I guess it's most likely the second point above. I've already seen a case where an additional binary array was added to the TIC in the mzML - could you...

For MRM data `msconvert --chromatogramFilter "index[1-]"` should fix the problem as it will export all chromatograms **except** the TIC. Alternatively, you could *simply* delete the one entry: open the converted...

If I got you correctly, the data is from an MRM experiment, so the mzML file should only have chromatograms, but no spectra in it. If that's the case, you...

Hm, what puzzles me is that the file above still contains the TIC with the "non-standard data array" binary data type. could you maybe use `--chromatogramFilter "index[2-]"`? just to see...

Hm, seems the link to the file is within ``` (i.e. formatted as code) - can you please add it again?

The TIC and the problematic data array is still in this file - this is for sure the correct file you sent me? seems that msconvert is not applying the...

Ah, I've overlooked that before. Seems that `msconvert` is ignoring this filter? Maybe try with `--chromatogramFilter "1-"` instead? Problem is that the chromatogram filters are not documented (or at least...

Hm, but then it seems that there is a problem with `msconvert`.

After trying myself I think the problem is a missing whitespace in the filter definition. It should be `--chromatogramFilter "index [1,]"`. Sorry for that.