The problem with cuffdiff should be fixed. Still looking at the tophat
failures.
Thanks for your patience, and for sticking with us as we iron this out.
--nate
On Oct 9, 2013, at 7:52 PM, Jennifer Jackson wrote:
> Hi Elwood,
>
> As I emailed to your direct question, we are looking at your bu
Dear Dannon,
Since the log files are quite large, so I put them onto a server.
Now you can get them from here:
http://tyche.uthsc.edu/ftp/user/leiyan/20131009_galaxylog/
Thanks again.
Lei Yan
Center for Integrative and Translational Genomics
The University of Tennessee Health Science Center
O
Hi Elwood,
As I emailed to your direct question, we are looking at your bug reports
in detail and will get back to you there. Thanks for submitting the
problems that way.
For anyone else reading, if you find problems right now on the upgraded
server, we are most definitely interested in lear
Hello Mikel,
This is a known issue with Bowtie2 at this time and a correction is in
progress.
Sorry for any confusion,
Jen
Galaxy team
On 10/9/13 8:57 AM, Mikel Egaña Aranguren wrote:
Hi;
I'm trying to use the bowtie2 wrapper but it generates and empty
output with the "no peek" sign. I ha
If you read the message, you will see that I can upload files as well.
LOTS OF FILES. I'm just wondering if the reason you are having CloudMan
problems is that I have uploaded over 100Gb of data today.
LTR
On 10/9/13 3:05 PM, Lei Yan wrote:
I tried, and I can upload files with URL on
http:/
I don't think this is the reason.
Lei Yan
Center for Integrative and Translational Genomics
The University of Tennessee Health Science Center
On Wed, Oct 9, 2013 at 3:07 PM, Larry Reiter wrote:
> If you read the message, you will see that I can upload files as well.
> LOTS OF FILES. I'm just
I've been uploading the .csfasta files and .qual files for my run. LOTS
of data. Could that be doing this?
LTR
On 10/9/13 2:56 PM, Lei Yan wrote:
Hi all,
I found some very strange problems on our cloud Galaxy
(http://galaxyclass.genenetwork.org/) recently, EVEN I did nothing.
* It show
I tried, and I can upload files with URL on
http://galaxyclass.genenetwork.org/.
Lei Yan
Center for Integrative and Translational Genomics
The University of Tennessee Health Science Center
On Wed, Oct 9, 2013 at 2:59 PM, Larry Reiter wrote:
> I've been uploading the .csfasta files and .qual f
Moved to galaxy-...@bx.psu.edu
On 10/8/13 4:44 PM, McCulloch, Alan wrote:
dear all,
we've just upgraded our Galaxy server (Galaxy revision
7148:17d57db9a7c0, upgraded to revision 10422:a886bc3ae924 ), and
have found that an NGS training workflow that one of us set up and
published is no
Ahh, ok, so you're hitting a bug from a previous release, sorry about that.
If you're able, updating cloudman itself will fix that (among other small
issues).
That file is also in /mnt/cm as 'paster.log' if you can SSH in to get it.
On Wed, Oct 9, 2013 at 5:18 PM, Lei Yan wrote:
> Dear Dannon
Can you send me the more detailed full cloudman log from the admin
interface (it may be quite large). This will help me see what may have
happened.
On Wed, Oct 9, 2013 at 3:56 PM, Lei Yan wrote:
> Hi all,
>
> I found some very strange problems on our cloud Galaxy (
> http://galaxyclass.genenet
Hello, I have been waiting a few weeks to process some RNA seq datasets
but woke up this morning with lots of steps red. I thought it just might
be because of the movement of the system but I processed steps for some
histories and everything has turned red.
I also noticed that online Galaxy now
Hi;
I'm trying to use the bowtie2 wrapper but it generates and empty output
with the "no peek" sign. I have sucesfully recreated the analysis with the
same datatsets on the shell, so it must be something to do with Galaxy, but
I don't know where to look at. Any clues? Thanks
I'm using bowtie2-2.1
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