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Hello
I'm having an issue with the new Tune v4.0. After processing the raw files with the last TRFP version the CID part of ETciD is lost. For instance:
<activation>
<cvParam cvRef="MS" accession="MS:1000045" value="88.6927185058594" name="collision energy" unitAccession="UO:0000266" unitName="electronvolt" unitCvRef="UO" />
<cvParam cvRef="MS" accession="MS:1000598" value="" name="electron transfer dissociation" />
</activation>
Another raw file but acquired with the old Tune v3.5 and the last TRFP version does not lose the CID part, has can be seen in this code:
<activation>
<cvParam cvRef="MS" accession="MS:1000045" value="100.179542541504" name="collision energy" unitAccession="UO:0000266" unitName="electronvolt" unitCvRef="UO" />
<cvParam cvRef="MS" accession="MS:1000598" value="" name="electron transfer dissociation" />
<cvParam cvRef="MS" accession="MS:1002680" value="35" name="supplemental collision energy" unitAccession="UO:0000266" unitName="electronvolt" unitCvRef="UO" />
<cvParam cvRef="MS" accession="MS:1002679" value="" name="supplemental collision-induced dissociation" />
</activation>
Could you please check? Here the mzMLs and RAWs: https://www.dropbox.com/scl/fo/06bn1v1a92xmxri1nsa36/h?rlkey=aeebgjt2ua3iuxdl58vhux4j3&dl=0
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