Running Contour Application

./Parser Segment_Name 1 2 3 4 5 6 7 8 Project_Name

• Segment_Name - the segment name, relative to the filenames. As in V1IL4CDS.1.eH.txt, you would use V1IL4CDS
• 1 - the number of the file associated with this sequences. As in V1IL4CDS.1.eH.txt, you would use 1
• 2 - Is the buffer enabled with this sequence? More ofter than not it will be 1, if not 0
• 3 - This is always 3
• 4 - Number of layers for eH
• 5 - Number of layers for eS
• 6 - Number of layers for inverse eS
• 7 - Not implemented yet, use the number 10 (Start percentage)
• 8 - Not implemented yet, use the number 10 (End percentage)
• Project_Name - This is just the project name you would like to use

Example:

./Parser segment 1 1 3 20 20 10 10 10 Steelers

** Make sure **

Make sure you save the sequence to both the Database_ESIS and store_sequences, and run the application from Database_ESIS.

If you are unable to run the sequence, make sure it is not already in the database. Delete it using: http://entromics.ccp.pitt.edu/Delete/