ms2pip feature generator file identification

[lliligabriel]

I am using .pepXML input and ms2rescore in the commandline.

Despite successfully using the correct self-provided decoy pattern, the percolator software reports error

Exception caught: ERROR: Reading tab file, error reading in feature vector of PSM mzspec:None:None:scan:2617:FHTLFGIAGLSLLGE/2_4. Check if there are    
                             enough features on this line and if they are all floating point numbers or integers.     

I described the None issue for run_name in a previous ticket, but even if I manually changed the None to the correct run_name (consistent with file_name), the issue is still not resolved.

The error is reported on the first line of file input. The line has the same number of features as the header line. The last two columns are Peptide and Proteins, which contain non-numerical data. I did try to run percolator independently specifying num_features used, however, some other online information says that these two columns are necessary for percolator execution.

Therefore, my final error output is

MS2RescoreError: Number of PSMs in original list (17397) does not match number of PSMs in Percolator    
                             output (0)     

any input or solutions?

thanks!