I am replying to myself to report limited progresses... :
if we run the tool shed server without apache, the "export capsule" job
works, except that the repository dependencies are not seen (no "Export
repository dependencies?" checkbox to check). Without this new layer of
complication, we would l
Hi Peter,
This was due to a bug I introduced last week, which I've just fixed
in d1f6d05. Sorry for the trouble.
--nate
On Tue, Sep 9, 2014 at 9:50 AM, Peter Cock
wrote:
> Hi all,
>
> I'm wondering why my samtools_depad repository tests have
> failed, and since I have not changed this recently
# sh run.shSome eggs are out of date, attempting to fetch...Warning: setuptools
(a dependent egg of sqlalchemy-migrate) cannot be fetchedWarning: simplejson (a
dependent egg of bioblend) cannot be fetchedsimplejson 2.1.1 couldn't be
downloaded automatically. You can trybuilding it by hand with:
Hey Ashish,
We have an open issue to sort out exactly why/how this happens, but a quick
fix for many users is just to remove your eggs/ folder and all eggs and
re-run `python scripts/fetch_eggs.py`. Give that a shot, but do let me
know if it doesn't' work.
On Wed, Sep 10, 2014 at 4:54 PM, ashis
Hi Folks,
Okay, I really need debugging ideas on this one.
I have three repositories I'm developing under the test toolshed. They're
named start_xena, xena_import and xena_find_datasets (they're all under
visualization). start_xena contains a simple tool dependency to a package
named installXen
Hi Dannon,
Thanks for the reply.
##
python --version
Python 2.7.3# cd galaxy-dist*# rm -rf eggs#python scripts/fetch_eggs.py
/*Running this command after deleting egg folder */
Fetched http://
Hi,
I have a local Galaxy instance. I have tied the server to a local HPC and we
use LSF for scheduling jobs. I was wondering how a user can submit a job from
Galaxy while specifying a wall time and memory requirements for a job… Is this
doable?
Thanks,
Prakash
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