Hi Andrew
you might wanna look at the Config files listed in the '.hgignore' file.
I usually do a quick diff on the new *.sample file with a copy of the
previous file and then merge any required changes into the actual file.
Regards, Hans
On 10/25/2011 10:38 PM, Andrew Warren wrote:
When
Hi Timothy,
It is possible there is a deadlock in Galaxy due too much data on
stout/stderr. Try logging to a file instead.
Peter
On Wednesday, October 26, 2011, Timothy Wu 2hug...@gmail.com wrote:
Hi,
I wrote a Python program which prints something to stdout while catching
an exception
Hi Shantanu
Sorry, for replying so late (I am working down a pile of e-mails which
accumulated during my holidays).
I have just implemented your suggested changes in our dev server. It is
brilliant - Thank you very much!
I will do it for our production server within the next few days.
Hi Ross,
I checked the following:
wget link works, I can download the file. It's not saved as
Historyname.tar.gz but as export_archive?id=a69ee3e00cb4d02c.
Anyway, I can unpack the archive with tar xfvz.
hg head:
Änderung:5955:949e4f5fa03a
Marke: tip
Nutzer: Nate
Hi,
I have Galaxy running locally and when trying to BWA map a set of paired-end
reads, the reference genome does not show up (mm9) by selecting either History
or Built-in. How do I fix this?
Thanks,
Christopher W. Callaway
University of Utah
Dept. of Pediatrics
Division of Neonatology
417
Reference genomes aren't distributed along with the galaxy source due to size
and other factors, but we do have a walkthrough for setting it all up on the
wiki at http://wiki.g2.bx.psu.edu/Admin/NGS%20Local%20Setup, see the Setting up
References section.
Thanks!
Dannon
On Oct 25, 2011, at
Hello Bart,
Would you please give this job another try, and if the error is
persistent, share a link to your history. Use Options - Share or
Publish and either generate a share link and send to me (directly, off
list) or add me to the list of share users then email to let me know
I've been
Hi Ross,
I checked the following:
wget link works, I can download the file. It's not saved as
Historyname.tar.gz but as export_archive?id=a69ee3e00cb4d02c. Anyway, I
can unpack the archive with tar xfvz.
hg head:
Änderung:5955:949e4f5fa03a
Marke: tip
Nutzer:
Hello Galaxy Folks,
NCBI has received a few requests to provide a mechanism for people browsing the
NCBI databases to download the data they have selected into Galaxy, so we are
looking into it. I know some other sites have done this, it looks like through
a URL based callback mechanism.
--
select id, state, command_line, stdout, stderr from job where
tool_id='__EXPORT_HISTORY__' order by id desc;
--
The query should actually be:
select id, state, command_line, stdout, stderr from job where
tool_id='__IMPORT_HISTORY__' order by id desc;
Thanks,
J.
Hans-Rudolf Hotz wrote:
Hi Andrew
you might wanna look at the Config files listed in the '.hgignore' file.
I usually do a quick diff on the new *.sample file with a copy of
the previous file and then merge any required changes into the
actual file.
This is essentially what I do when I
Hi,
I am watching the video 'Example
3http://screencast.g2.bx.psu.edu/galaxy/quickie12_illumina_pe/flow.html
-
mapping paired-end Illumina run and visualizing results at UCSC Browser', and
would like to try out the exercise. I don't have paired-end Illumina
fastq sample, Could you provide me the
Hi Jim,
The preferred method to add external datasources is the URL-based callback
mechanism as described in http://www.ncbi.nlm.nih.gov/pubmed/21531983 and
http://wiki.g2.bx.psu.edu/Admin/Internals/Data%20Sources. It has proven
effective for importing data from various data resources using
Hello David,
I'm not sure why you're seeing this - do you mind if I try to delete all of the
files in your repository whose name ends in '~'? That may help me track down
the problem.
Greg Von Kuster
On Oct 26, 2011, at 3:09 PM, David Murphy wrote:
Hi
I've been trying to create a
Hi,
I'm just doing a simple get-data from UCSC on our local Galaxy
instance and got the following error:
WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako)
cannot be fetched
The job box then is displayed as red on the history panel.
The job runner states that the job finished
Just to follow-up on this. The MarkupSafe egg is definitely present on the
eggs directory and the servers are ran through virtualenv.
On 27 October 2011 15:08, Jerico Nico De Leon Revote
jerico.rev...@monash.edu wrote:
Hi,
I'm just doing a simple get-data from UCSC on our local Galaxy
16 matches
Mail list logo
