Thanks Ross and Peter. That worked.
I think I will keep the Python wrapper though, gives me more control :)
Saket
On 3 June 2013 16:48, Ross ross.laza...@gmail.com wrote:
Hi Saket
If you want to redirect the executable's stdout to a new Galaxy dataset
you've defined as $output, something
Hi Saket,
I haven't looked at this but I noticed the following advice on their web
site:
If you want to call PANAMA directly from python, just take a look at the
PANAMA function inpanama.core.run.
Do you have a plan for representing the required incoming expression and
snp matrices in Galaxy?
Hi Ross,
On 4 June 2013 16:15, Ross ross.laza...@gmail.com wrote:
Hi Saket,
I haven't looked at this but I noticed the following advice on their web
site:
If you want to call PANAMA directly from python, just take a look at the
PANAMA function inpanama.core.run.
Do you have a plan for
As part of a warmup, I added a tool for perming eQTL analysis using PANAMA(
http://ml.sheffield.ac.uk/qtl/panama/).
By default PANAMA writes to stderr and creates a PANAM_results.csv file in
the same directory as the input files.
I wrote a python wrapper
On Mon, Jun 3, 2013 at 11:53 AM, Saket Choudhary sake...@gmail.com wrote:
As part of a warmup, I added a tool for perming eQTL analysis using
PANAMA(http://ml.sheffield.ac.uk/qtl/panama/).
By default PANAMA writes to stderr and creates a PANAM_results.csv file in
the same directory as the
Hi Saket
If you want to redirect the executable's stdout to a new Galaxy dataset
you've defined as $output, something like:
gt; '$output'
is a workable idiom for a command line AFAIK - you need to escape the
redirection '' character or you'll confuse the xml parser.
It's often possible to hack a
