You likely want the newest version (3)
On Feb 15, 2013 9:37 AM, "greg" <margeem...@gmail.com> wrote:
> Thanks! So one question, when I go to install it from the toolshed I
> see two choices for a revision to select:
> Which would I choose and why?
> On Fri, Feb 15, 2013 at 9:30 AM, James Taylor <ja...@jamestaylor.org>
> > The wrapper you are using is for MACS 1.3, there is a wrapper that is
> > compatible with 1.4 in the toolshed.
> > --
> > James Taylor, Assistant Professor, Biology/CS, Emory University
> > On Fri, Feb 15, 2013 at 9:26 AM, greg <margeem...@gmail.com> wrote:
> >> Hi guys,
> >> I'm trying to run MACS in my local galaxy install (see screenshot:
> >> http://snag.gy/5QGUH.jpg)
> >> And I'm getting this error:
> >> Usage: macs <-t tfile> [-n name] [-g genomesize] [options]
> >> Example: macs -t ChIP.bam -c Control.bam -f BAM -g h -n test -w
> >> macs: error: no such option: --lambdaset
> >> Thanks in advance for any help.
> >> -Greg
> >> Here's how I installed Macs (I guess it doesn't come built in?)
> >>> cd /usr/local/galaxy/downloads/
> >>> wget https://github.com/downloads/taoliu/MACS/MACS-1.4.2-1.tar.gz
> >>> tar -xzvf MACS-1.4.2-1.tar.gz
> >>> cd MACS-1.4.2
> >>> source /usr/local/galaxy/job_environment_setup_file
> >>> python setup.py install
> >>> deactivate
> >>> cd /misc/local/galaxy/galaxy_python/bin
> >>> ln -s macs14 macs
> >> (and made sure /misc/local/galaxy/galaxy_python/bin is on the galaxy
> >> user's path)
> >> ___________________________________________________________
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