...moved to dalaxy-dev, since it is about your local Galaxy instances:
Hi Philippe
Your galaxy wrapper for MACS expects version 1.3, where the option
"--lambdaset" is present. (see
https://github.com/taoliu/MACS/blob/macs_v1/ChangeLog)
Regards, Hans-Rudolf
-------- Original Message --------
Subject: [galaxy-user] MACS failed because of lambdaset options
Date: Mon, 29 Oct 2012 11:40:28 +1100
From: Philipe Moncuquet <philippe.m...@gmail.com>
To: <galaxy-u...@lists.bx.psu.edu>
Hi,
I am trying to use MACS and I get the following error when the job fails :
Usage: macs <-t tfile> [-n name] [-g genomesize] [options]
Example: macs -t ChIP.bam -c Control.bam -f BAM -g h -n test -w
--call-subpeaks
macs: error: no such option: --lambdaset
I am not really familiar to MACS so I checked the documentation and it
seems Galaxy is rigth to complain because there is no such option as
--lambdaset (http://liulab.dfci.harvard.edu/MACS/README.html).
I went back to the xml wrapper and there is this (
<paramname="lambdaset"type="text" ....) parameters that corresponds to
the text box
3 levels of regions around the peak region to calculate the maximum
lambda as local lambda:
Does anyone face the same problem ? Any clue on what I should try,
should I modify the wrapper ?
Cheers,
Philippe
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