Centwave error with converted .wiff files. about xcms HOT 1 OPEN

If the mzML files were created with msconvert and were also centroided you should get a TRUE for all spectra when you call centroided(data) (with data being your files read with readMSData(files, mode = "onDisk"). centroided will read this information from the mzML files, and msconvert writes this information into the mzML files when it does centroiding.

Maybe you can also check your files again following this example - and eventually also doing the centroiding - if needed - in R.

If your data is indeed centroided then you can safely ignore this warning message (it's not an error, it's just a warning). If no centroiding information is available for a data set (i.e. centroided returns NA for all spectra) then xcms uses some random spectra from the data to guess whether the data might be centroided or not - and that might not always be correct.

from xcms.