Question: Macs Failed Because Of Lambdaset Options
gravatar for Philipe Moncuquet
5.4 years ago by
Philipe Moncuquet40 wrote:
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 ( I went back to the xml wrapper and there is this ( <param name="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<="" div="">
macs • 664 views
ADD COMMENTlink modified 5.4 years ago by Jennifer Hillman Jackson24k • written 5.4 years ago by Philipe Moncuquet40
gravatar for Jennifer Hillman Jackson
5.4 years ago by
United States
Jennifer Hillman Jackson24k wrote:
Hello Philipe, Is this problem occurring on the public Main Galaxy server at http://main.g2.bx.psu If so, please submit a bug report so that we can examine. If this is occurring on a local instance, it could be that there is a mismatch between the version of MACS supported by the Galaxy wrapper and the version of MACS installed. The current wrapper is for MACS v 1.3. The final possibility is that this is on another public instance - if you need help finding out how to contact their support/administrator, or if your question has been misunderstood, please let us know. Best, Jen Galaxy team -- Jennifer Jackson
ADD COMMENTlink written 5.4 years ago by Jennifer Hillman Jackson24k
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