Hi Kenneth
If you try to connect to localhost using your PC, it will search for a
(galaxy)server on your PC. Hence, you need to replace localhost with
the name or IP adress of the server where Galaxy is running
Regards, Hans
On 08/17/2012 03:24 AM, Kenneth Watanabe wrote:
To Galaxy,
I
Hi Nate,
thanks. Do you know what's the reason for using copying first the
contents to the /tmp directory, before copying it into a the
database/files/... Seems inefficient to do so, or is this not how it
works perhaps?
Regards,
Joachim
Joachim Jacob, PhD
Rijvisschestraat 120, 9052
On Fri, Aug 17, 2012 at 12:18 AM, Dan Tenenbaum dtene...@fhcrc.org wrote:
Hello, I have the following wrapper:
tool id=foo name=foo version=0.99.0
descriptionfoo/description
command interpreter=python
tool.py $outputFileName
/command
inputs
param name=tp type=text
Hello,
I am new to using Galaxy tools. I am running paired end RNA-Seq data on
Galaxy and I want to differential gene expression between control and
treated samples
I was fine until running TopHat output, I am having problems with cufflinks
and cuffdiff output.
I ran the cufflinks and cuffdiff
On 8/16/12 4:18 PM, Karger, Amir amir_kar...@hms.harvard.edu wrote:
On 8/8/12 4:06 PM, Nate Coraor n...@bx.psu.edu wrote:
If you aren't setting job_manager and job_handlers in your config, each
server will consider itself the manager and handler. If not configured
to run jobs, this may result
Hello,
Is there a way to do one or both of the following:
1) Group a set of related parameters together on a tool page
2) Put a separator in between related groups.
I have a tool with lots of parameters. It's ok to have them all on one
page but I'd like to have some space or a line between the
I'm writing documentation now - I'll have something this afternoon.
Sorry for the delay.
-Scott
- Original Message -
No, I call the executable directly from the xml. It kept failing
although it seemed to finish the job and I realized that on success
the executable prints a summary
Thanks, greatly appreciated!
Birgit Crain, Ph.D. | Sr. Professional Services Scientist | Complete Genomics,
Inc.
(650) 428-6023 office | (408) 605-3938 mobile
bcr...@completegenomics.commailto:bcr...@completegenomics.com
From: Scott McManus
Greetings,
I was working on the TopHat wrapper (we have customized one for handling
just one input Fastq read) for handling multiple reads. I figured out that
using repeat tag was the way forward, but have been having a hard time with
the Cheetah template.
Any help or suggestions?
Sincerely,
Hi Team,
Since I upgraded to the latest galaxy-dist I can no longer get the reports
interface to function. When I go to galaxy:9001 I get the following server
error: An error occurred. See the error logs for more information. (Turn debug
on to display exception reports here). The
Please see http://wiki.g2.bx.psu.edu/Admin/Tools/Tool%20Config%20Syntax .
There is a section for stdio, regex, and exit_code tag sets. The
documentation
applies to the latest galaxy-dist, though most of what's mentioned (aside from
updating
stdout and stderr with warning messages) is
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