Galaxy Tool Tips and Troubleshooting

Escaped Characters

When Galaxy runs string values from the UI in a command for a tool, it first escapes some characters to protect against injection attacks.

For instance, if a user inputs the character '#' Galaxy will convert it into '__pd__' before pushing the string into the command XML tool config statement.

As of yet, this is undocumented behavior. The full list of escaped characters can be found in galaxy-dist/lib/galaxy/util/__init__.py under the name mapped_chars.

For reference the full list as of 11/23/2011 is:

mapped_chars = { '>' :'__gt__',
                '<' :'__lt__',
                "'" :'__sq__',
                '"' :'__dq__',
                '[' :'__ob__',
                ']' :'__cb__',
                '{' :'__oc__',
                '}' :'__cc__',
                '@' : '__at__',
                '\n' : '__cn__',
                '\r' : '__cr__',
                '\t' : '__tc__',
                '#' : '__pd__'
                }