You need to redirect into a file. In the example below this file is named "$out_file1": <tool id="myTool1" name="myTool"> <description>for doing somethiung</description> <command interpreter="perl">myTool.pl $input > $out_file1</command> <inputs> <param format="txt" name="input" type="data" label="Do something with this dataset"/> </inputs> <outputs> <data format="input" name="out_file1"/> </outputs> <help> Let us know if this does not help. anton galaxy team On Oct 24, 2008, at 4:04 PM, very wrote:

Hi,

Currently, my tool only print out the result on screen. When I add it into galaxy I can't see the result. Do I have to write the result into a file and make the file name as one parameter when invoking the tool, so I can see result in galaxy?

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Anton Nekrutenko Asst. Professor Department of Biochemistry and Molecular Biology Center for Comparative Genomics and Bioinformatics Penn State University anton@bx.psu.edu http://nekrut.bx.psu.edu 814.865.4752