resfile_error.py

Example program for handling errors in the Mascot results files.

#!/usr/bin/python
 
 
import sys
import msparser
 
def main() :
    if len(sys.argv) < 2 :  
        print("Must specify results filename as parameter")
        return 1
 
    file = msparser.ms_mascotresfilebase.createResfile(sys.argv[1])
 
    if file.isValid() : 
        checkErrorHandler(file)
    else :
        print("Invalid file: %s" % file.getLastErrorString())
 
 
 
def checkErrorHandler(resfile) :
    """
    Calls a couple of functions with invalid arguments, then prints
    their error messages.
    """
 
    print("Testing the error handling...            ")
    print("=========================================")
 
    numQueries = resfile.getNumQueries()
    resfile.getObservedCharge(numQueries + 40);  # Should fail
 
    print("Error number: %s" % resfile.getLastError())
    print("Error string: %s" % resfile.getLastErrorString())
 
    resfile.clearAllErrors()
    print("Cleared all errors - should have no errors left: %s errors left" %resfile.getNumberOfErrors())
    
    for x in range(1, 21) :
        resfile.getObservedCharge(numQueries + x);  # Should fail
    
    # Now, the best way, print out all errors.
    print("More errors added - there are now %s errors" % resfile.getNumberOfErrors())
 
    for i in range(1, 1 + resfile.getNumberOfErrors()) :
        print("Error number: %s : %s" % (resfile.getErrorNumber(i), resfile.getErrorString(i)))
           
 
    print(" ")
    resfile.clearAllErrors()
 
 
 
if __name__ == "__main__":
    sys.exit(main())
 
""" Running the program as
 
python resfile_error.py F981123.dat
 
will give the following output:
 
 
Testing the error handling...            
=========================================
Error number: 4
Error string: Query out of range. In function getObservedCharge. Request query 107, num queries: 67
Cleared all errors - should have no errors left: 0 errors left
More errors added - there are now 2 errors
Error number: 4 : Query out of range. In function getObservedCharge. Request query 68, num queries: 67
Error number: 4 : Query out of range. In function getObservedCharge. Request query 69, num queries: 67 (Error repeated 19 times)
 
 
"""