Dear Galaxy-gurus,
How can I pass a string with spaces as a parameter from the galaxy interface to a tool that I've written myself in perl? I've tried enclosing the string with quotes (single and double) and various escape characters and all they do is add __dq/sq/X__ to the start of the string and then ignore everything else after the space.
my xml looks like:
<tool id="blah" name="mytool"> <command interpreter="perl"> /pathto/mycommand.pl -str $str </command> <inputs> <param name="str" type="text" label="Put your string here" />
The kind of commandline i'm looking for this to generate is....
perl mycommand.pl -str "this is my string"
but currently it just gives
perl mycommand.pl -str this or perl mycommand.pl -str __dq__this or perl mycommand.pl -str X__dq__this
Thanks!