Hi,
I'm implementing my own tools. In one tool I may have hundreds of input
files. (or maybe I'm doing it wrong?) I'm copying off the tool conf xml code
from the concatenate dataset tool. But this requires adding files one by
one. Is there a quicker way in which I can just specify these files
Hi Joe,
And this is happening on a freshly booted instance (from
a previously existing cluster) using the same AMI? The order of execution
seems a bit odd, seeing Galaxy being removed before SGE is setup; SGE should
be the first thing that gets setup so I'm wondering...
If you log into the
Hi,
Correct. Same instance.
Slowly deteriorating even more - at first it had only SGE and Galaxy hung. Now
when rebooting, only CM starts. No fs, postgres...
The knee-jerk reaction is to just start a brand new instance, but that would
not help anyone who wants to use this AIM in the future
I'd like to map RNA-Seq data from two different bacterial species to their
genomes. How do I go about getting a custom index added to the galaxy server?
One of the genomes is not yet published so is it possible to keep the indexes
private?
Thanks,
Candace
The problem was caused by an unimplemented method in the TaskWrapper. I've
fixed it in changeset 6026:3f926d934d98.
-Dannon
On Sep 20, 2011, at 6:58 PM, Chorny, Ilya wrote:
Hi Nate,
We are having an issue that when use_tasked_jobs = True, the
job_wrapper.user = None in drama.py. Do
Hi Shaun,
I have built up a large collection of Galaxy data on my local account and I
am now finding the following operations very slow:
Showing saved histories
I just committed a fix in galaxy-central that should help out considerably:
Hello,
It seems this issue (rpy) pops up every now and then:
Has anyone managed to get rpy-1.0.3 working properly with R-13.1 (including
loading packages) ?
After compiling R-2.13.1 from source, and recompiling rpy-1.0.3, I get the
following error when trying to load an R module through rpy:
On Sep 22, 2011, at 1:56 PM, Assaf Gordon wrote:
Hello,
It seems this issue (rpy) pops up every now and then:
Has anyone managed to get rpy-1.0.3 working properly with R-13.1 (including
loading packages) ?
I already replied to Assaf, so this is a list copy. Yes, this combination
works.
Just for reference in case anyone runs into this problem here is my personal
installation log:
Build R with the following additions:
Configuration:
Edit the config.site file and add the
CFLAGS= -g -02 -fPIC
Run:
./configure --prefix=/apps/R/2.13.1 --enable-R-shlib
Run:
make; make install
Copy
Hello Galaxy Developers:
I noticed a few issues with the OpendID system.
The first is that attempting to log in with an OpenID not associated with a
galaxy account gives a Server Error page.
Also using Flickr as an OP gives:
Failed to begin OpenID authentication: No usable OpenID services found
On Thu, Sep 22, 2011 at 4:36 PM, Peter Cock p.j.a.c...@googlemail.comwrote:
How does your tool handle this at the command line (ignoring Galaxy)?
Does it expect a directory name or pattern, or just a really long
command line string with many many file names?
Originally I have this config
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