Thank you, Vipin. Your information is very helpful. Regards, Bo On Sat, Jul 30, 2011 at 2:13 PM, Vipin TS <vipin.ts@gmail.com> wrote:
Dear all,
I want to build a Galaxy tool to run R script. Do you know if there is already such tool or similar function? If you can share with me, I would very appreciate your help.
Hi Bo Liu, In my Galaxy instance I added few tools running with R. Here I just wrote a bash wrapper script to run the R program. Something like this: a) tool.xml file <command> /home/foo/tools/deseq/src/deseq.sh $anno_input.select_anno_format $anno_out $deseq_out $bam_alignments1 $bam_alignments2 >> $Log_File </command> b) deseq.sh file ## calling R script cat ../src/difftest_deseq.R | /usr/bin/R --slave --args $tmpfile ${DESEQ_RES} Hope this will solve your issue ! --Vipin
Thank you, Bo Liu ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: