Issue with matrices from metaMS (GCMS preprocess)

[yguitton]

At the end of metaMS process the 3 matrices (dataMatrix, sampleMetadata and variableMetdata) are return and can be used in other w4M tools. But for generic filter it seems that GCMS variables names are not compatibles. in xcms features names in variableMetadata and dataMatrix are MxTy in metaMS their are "Unknown[space]X" or "compound name", when i removed the [space] in features names it works. Any idea to improve that ?

[melpetera]

This is strange, I just run this tool with data from metaMS and I did not run into any problem. I do have "Unknown[space]X" in my identifiers, but I do not have any "compound name" in it. Could you please share with me some Galaxy History, or data that can not go through the tool?