purityX cannot read XCMS output file · Issue #53 · computational-metabolomics/mspurity-galaxy (original) (raw)

Hi,
I am currently working with a XCMS workflow with Galaxy France and it seems to be a compatibility problem with the XCMS output RData. The RData provided by the final step of XCMS (groupChromPeaks) is not read by purityX:

Error in print(xset@filepaths) : 
  no slot of name "filepaths" for this object of class "XCMSnExp"
Execution halted

The problem does not come from usegalaxy.fr, it seems to come from the purityX wrapper. Is that du to the fact that purityX is made for FIA-MS/MS data while purityA is conceived for LC-MS/MS? I am in dire need to use purityX with LC-MS/MS.
Best regards,
Quentin Ruin