It's exactly what I needed!!! Thanks a lot! L-A Le 20/05/2011 12:29, Peter Cock a écrit :
2011/5/20 Louise-Amélie Schmitt<louise-amelie.schmitt@embl.de>:
Hello
Is there a way to check the file type with a conditional tag set within a tool?
For example, if the tool can accept several file types but I have to make cheetah shut off some stuff for a couple of them?
You can do conditional code in the cheetah template using $input.ext or $input.extension which both give you the Galaxy file type of an input file parameter called $input.
For example, look at tools/fastx_toolkit/fastx_clipper.xml which does:
#if $input.ext == "fastqsanger": -Q 33 #end if
Alternatively, if you want to do this in the script being called by Galaxy, just pass $input.ext as part of the command line.
Peter