comparison scatterplot.py @ 4:113045fca1aa draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/scatterplot commit 405b0656c97b3971605e09f77cf46ca1f4870346

3:1dacc8aeb452

#!/usr/bin/env python
# Greg Von Kuster

import sys

from numpy import array
import rpy2.rpy_classic as rpy

    skipped_lines = 0
    first_invalid_line = 0
    invalid_value = ''
    invalid_column = 0
    i = 0
    for i, line in enumerate( file( in_fname ) ):
        valid = True
        line = line.rstrip( '\r\n' )
        if line and not line.startswith( '#' ):
            row = []
            fields = line.split( "\t" )

        try:
            a = numpy2ri(array( matrix ))
            r.pdf( out_fname, 8, 8 )
            r.plot( a, type="p", main=title, xlab=xlab, ylab=ylab, col="blue", pch=19 )
            r.dev_off()
        except Exception, exc:
            stop_err( "%s" % str( exc ) )
    else:
        stop_err( "All values in both columns %s and %s are non-numeric or empty." % ( sys.argv[3], sys.argv[4] ) )

    print "Scatter plot on columns %s, %s. " % ( sys.argv[3], sys.argv[4] )
    if skipped_lines > 0:
        print "Skipped %d lines starting with line #%d, value '%s' in column %d is not numeric." % ( skipped_lines, first_invalid_line, invalid_value, invalid_column )

if __name__ == "__main__":
    main()

4:113045fca1aa

#!/usr/bin/env python
# Greg Von Kuster

from __future__ import print_function

import sys

from numpy import array
import rpy2.rpy_classic as rpy

    skipped_lines = 0
    first_invalid_line = 0
    invalid_value = ''
    invalid_column = 0
    i = 0
    for i, line in enumerate( open( in_fname ) ):
        valid = True
        line = line.rstrip( '\r\n' )
        if line and not line.startswith( '#' ):
            row = []
            fields = line.split( "\t" )

        try:
            a = numpy2ri(array( matrix ))
            r.pdf( out_fname, 8, 8 )
            r.plot( a, type="p", main=title, xlab=xlab, ylab=ylab, col="blue", pch=19 )
            r.dev_off()
        except Exception as exc:
            stop_err( "%s" % str( exc ) )
    else:
        stop_err( "All values in both columns %s and %s are non-numeric or empty." % ( sys.argv[3], sys.argv[4] ) )

    print("Scatter plot on columns %s, %s. " % ( sys.argv[3], sys.argv[4] ))
    if skipped_lines > 0:
        print("Skipped %d lines starting with line #%d, value '%s' in column %d is not numeric." % ( skipped_lines, first_invalid_line, invalid_value, invalid_column ))

if __name__ == "__main__":
    main()