Hi,
to chime into this discussion.
I found some inconsistency during my rsync endeavor and I'm curious if
there is any way to contribute to that service.
--
xenTro3 xenTro3 Frog (Xenopus tropicalis):
xenTro3 /galaxy/data/xenTro3/seq/xenTro3.fa
but only
/xenTro3.fa.gz exists.
---
ce6
Thanks Nate,
I will try manually editing the lib/galaxy/jobs/runners/__init__.py file
for now, as we are not ready to update to the latest distribution yet.
I should try the new distribution's fix in a couple weeks.
Many thanks for solving this issue!
I will let you know if it doesn't solve our
On Nov 7, 2013, at 2:45 PM, Jean-Francois Payotte wrote:
Dear Galaxy developers,
I know I am not the only one with this issue, as over time I've stumbled on a
few mailing-list threads with other users having the same problem.
And I know the recommended solution is to use the -noac mount
Hello all,
We are in the process of switching from SGE to SLURM for our galaxy setup.
We are currently experiencing a problem where jobs that are completely
successful (no text in their stderr file and the proper exit code) are
being hidden after the job completes. Any job that fails or has some
Sending to galaxy-dev instead.
From: Srinivas Maddhi
iihg-galaxy-ad...@uiowa.edumailto:iihg-galaxy-ad...@uiowa.edu
Date: Friday, November 1, 2013 11:56 AM
To: galaxy-u...@lists.bx.psu.edumailto:galaxy-u...@lists.bx.psu.edu
galaxy-u...@lists.bx.psu.edumailto:galaxy-u...@lists.bx.psu.edu
Subject:
Hi John,
I was just wondering, did you have an object store based suggestion as well?
Logically, this seems to be where this operation should be done, but I don't
see much infrastructure to support this, such as logic for moving a data object
between object stores. (Incidentally, the release
Thanks,
There have been no public data updates since the migration started (late
last spring we froze the data). But there are some known issues and data
that is ready to be released, in the process of becoming ready, etc. We
expect to be able to start working on this again in the very near
Hello,
The mm9 bt2 indexes were restored this morning. You can track this and
other current data fixes through this Trello card:
https://trello.com/c/SbizUDQt
Thanks for your patience during the migration. We are moving on to data
now, both corrections and updates.
Jen
Galaxy team
On
Hi Jen,
fantastic news!
Thanks a lot!
Bjoern
Thanks,
There have been no public data updates since the migration started
(late last spring we froze the data). But there are some known issues
and data that is ready to be released, in the process of becoming
ready, etc. We expect to be able
Hello Ray and Björn,
The ability to import an exported repository archive is now available for the
web UI in 11261:5c59f2c4f770. I will enhance the Tool Shed API to accomodate
this new feature next.
This feature is available only in galaxy-central, so it will not be available
on the main
Hi John,
I have now read the top-level documentation for LWR, and gone through the
sample configurations. I would appreciate if you would answer a few technical
questions for me.
1) How exactly is the staging_directory in server.ini.sample used? Is that
intended to be the (final) location
Folks,
I am new to using proftpd/Galaxy on a local cluster I am having lots of issues.
Here is one. I cannot connect to the proftpd server to upload files.
./proftpd --version
ProFTPD Version 1.3.4d
( so proftpd is compiled and running)
I am attempting to connect from an iMAC (OSX 10.9) to
Hi Jun,
There is probably a problem with the tool design itself, but that may be
what you are asking how to solve. I wouldn't think this is a problem
with workflows at first pass.
Is this your own tool? Or a tool from the tool shed (the repo developer
is usually the one to make changes,
Hi Jen
Thanks for your reply. Yes, it is my own tool.
The outputs element is
outputs
data format=gff3 name=output/
/outputs
In the command element, the three output files are defined as below
$output /$__new_file_path__/primary_${output.id}_samWithPeptides_visible_sam
Hi Fan,
The outputs /outputs block should contain one line for each of the
output files. I believe that you need to name these differently.
output1, output2, etc. Or you can add in text and use variables, if
you add in the label option.
Others can correct or add to my comments.
Good luck!
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