Is this the right spot for this question? Or is it better to ask elsewhere?
On Mon, 13 May 2019 at 09:50, Eric Kuyt wrote:
> Hey all,
>
> I have a question about the samtools_slice_bam tool in the samtools suite.
>
> It seems the references variable remains empty after re-detec
Hey all,
I have a question about the samtools_slice_bam tool in the samtools suite.
It seems the references variable remains empty after re-detecting metadata.
I now tried sorting the bam in galaxy and manually in samtools, but no
references coming up.
I also ran a breakpoint in the binary.Bam.s
this woudn't make me very happy.
in File: /lib/galaxy_ext/metadata/set_metadata.py
a sys.path.insert to .venv/lib should be added. I don't know what the right
plcae for this is.
Do you hava any better ideas for this matter?
Eric
On 8 April 2016 at 16:15, Eric Kuyt wrote:
>
Thanks, works like a charm! Clean easy fix, Now why I couldn't come up
with this myself.
On 2 April 2016 at 11:49, Marius van den Beek
wrote:
> ld have been mentioned with the release notes.
> I didn't test this, but it might be sufficient to replace
> PYTHON="/usr/bin/python"
> with PYTHON=""
working anymore.
What is the new startup procedure? I kind of dislike galaxy changing to
virtualenv and not change your documentation and not answering my question.
On 17 March 2016 at 14:00, Eric Kuyt wrote:
> Hey guys, today I updated to the latest version of galaxy. No I noticed
>
Hey guys, today I updated to the latest version of galaxy. No I noticed
that because of the new virtualenv/wheel startup procedure, the init
scripts as mentioned here
https://wiki.galaxyproject.org/Events/GCC2012/TrainingDay/WS5?highlight=%28init.d%29
are not working anymore. Whet is the new start
t; I don't think the database server (unless it is sqlite) is ever the
> bottleneck, is-it?
>
>
> Regards, Hans-Rudolf
>
>
> On 07/27/2015 02:35 PM, Eric Kuyt wrote:
> > Hi All,
> >
> > We are thinking of putting our galaxy instance in a new more powerful
&
Hi All,
We are thinking of putting our galaxy instance in a new more powerful
environment. Galaxy is now on a single server containing a psql database
which is migrated from mysql a few years ago.
The new environment already houses a really nice backupped highly available
mysql server.
as galaxy
Could you try going to Admin -> Manage Installed tool shed repositories
uninstall -> reinstall package_samtools_0_1_18
On 26 November 2014 at 16:55, Anna Terry wrote:
> yway, I am also getting the problem with samtools filter sam or bam
--
Central Veterinary Institute of Wageningen UR
Hi Anna,
Setting your own path variables shouldn't be necessary for toolshed tools,
so probably something is wrong with the installation. could you post your
tooldependencies/bowtie2/2.1.0/devteam/package_bowtie2_2_1_0/017a00c265f1/INSTALLATION.log
file?
On 26 November 2014 at 13:49, Anna Terry
10 matches
Mail list logo
