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percolator / percolator

Semi-supervised learning for peptide identification from shotgun proteomics datasets
http://percolator.ms
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Processing messages from sqt2pin are confusing #44

Closed percolator closed 13 years ago

percolator commented 13 years ago

I get the following processing info on stderr:

Sqt2Pin version 2.01, Build Date Jun 30 2011 12:52:26 Copyright (c) 2010 Lukas Käll. All rights reserved. Written by Lukas Käll (lukask@cbr.su.se) in the Department of Biochemistry and Biophysics at the Stockholm University. Issued command: sqt2pin ../target200ppm/Celegans_Jupter_C12_120min_grad.sqt ../reverse200ppm/Celegans_Jupter_C12_120min_grad.sqt

Reading from sqt file(s) and writing to database(s): reading ../target200ppm/Celegans_Jupter_C12_120min_grad.sqt reading ../reverse200ppm/Celegans_Jupter_C12_120min_grad.sqt

Writing database(s) to pin file: writing ../target200ppm/Celegans_Jupter_C12_120min_grad.sqt (and correspondent decoy file)

Termination successful.

  1. write sqt2pin and not Sqt2pin
  2. We are hopefully not writing to the sqt file writing ../target200ppm/Celegans_Jupter_C12_120min_grad.sqt (and correspondent decoy file) -- instead we are writing the contense from those files to stdout
  3. What does Termination successful mean?
mattiat commented 13 years ago

  1. changed

    Writing database(s) to pin file: writing X.sqt (and correspondent decoy file) to Writing output: outputting content of X.sqt (and correspondent decoy file)

  2. changed

    Termination successful to All the input files have been successfully processed

https://github.com/percolator/percolator/commit/160dbe8a175abdacb8166388ed55aa61d1b4bcb8

percolator commented 13 years ago
  1. changed

       Termination successful to    All the input files have been successfully processed

please put that under a if(VERB>1){}