Hi Ed
You can use the variable $userEmail in the 'command' tag of the tool
definition file
Regards, Hans
On 05/06/2011 03:56 AM, Edward Kirton wrote:
is there a variable i can use in the tool config xml file?
thanks!
ed
___
Hi
In your_galaxy_root_path/lib/galaxy/datatypes/binary.py try adding the
extension of your suffix array file type in the
unsniffable_binary_formats array.
It would be a good idea to add a class for this file type here too and
make sure the datatypes_conf.xml file refers to it.
Hope that
Hi Darren
I assume, you have created a new data type
https://bitbucket.org/galaxy/galaxy-central/wiki/AddingDatatypes
You can now disable the 'sniffing' by adding the data type to the
following line:
unsniffable_binary_formats = [ 'ab1', 'scf' ]
in:
On Fri, May 6, 2011 at 8:18 AM, Hans-Rudolf Hotz h...@fmi.ch wrote:
Hi Ed
You can use the variable $userEmail in the 'command' tag of the tool
definition file
Regards, Hans
That should probably be listed on the wiki,
https://bitbucket.org/galaxy/galaxy-central/wiki/ToolConfigSyntax
Are
Hi, I have created a tool that will fetch sequences for selected IDs
from a tabular file containing multiple IDs and additional info.
I want the tool config to scan the first column of the tab file for
IDs and provide the user with a selection box where they can select a
single ID or
On Fri, May 6, 2011 at 10:17 AM, SHAUN WEBB swe...@staffmail.ed.ac.uk wrote:
Hi, I have created a tool that will fetch sequences for selected IDs from a
tabular file containing multiple IDs and additional info.
I want the tool config to scan the first column of the tab file for IDs and
Line 298 of galaxy-dist/tool_conf.xml in the zipped distribution
downloaded yesterday
tool file=indels/indel_table.xml /
should be
tool file=indels/indel_table.xml /
?
Marina
--
The Wellcome Trust Sanger Institute is operated by Genome Research
Limited, a charity registered in England
Vipin TS wrote:
Dear Galaxy Team,
I am switching our Galaxy production service to a new machine, We are using
Postgres as database server.
The existing database belongs to postgres version 8.3 and I took my
instance's dump using postgres version 8.4.
I am able to restore my database on
Marco Moretto wrote:
Hi all,
I successfully installed a Galaxy instance locally. I use Galaxy with
Apache. Every time I try to download a file from history (like Options -
Export to file) the browser (Firefox 3.6) reply with the error
/tmp/lFeL6erm.asc.part could not be saved, because the
Liisa Koski wrote:
Hi,
Yesterday I ran the cleanup_datasets.py scripts as follows..
Deleting Userless Histories
python cleanup_datasets.py universe_wsgi.ini -d 10 -1
Purging Deleted Histories
python cleanup_datasets.py universe_wsgi.ini -d 10 -2 -r
Purging Deleted Datasets
python
Duddy, John wrote:
I'm looking at extending the metadata fields for one of the supported file
types. The files can get VERY large, and since I'm creating those files, I'd
like to save as metadata some of the information I have on the contents.
Specifically, I'd like to tag the files with
Marina Gourtovaia wrote:
Line 298 of galaxy-dist/tool_conf.xml in the zipped distribution
downloaded yesterday
tool file=indels/indel_table.xml /
should be
tool file=indels/indel_table.xml /
?
Hi Marina,
Indeed, thanks for catching this. It has been fixed and will go out in
the
Hi Nate,
thanks for answering. I performed some tests stealing PCs from my
collegues and actually it was a problem of my profile data. I experienced
these problems with both Chromium and Firefox on my machine, but with others
it works, so I decided to simply clean up my profile data and now it
Hello Leandro,
On the main Galaxy site, an automatic email function is not currently
possible (but the suggestion is a good one!). If you are running your
own instance, this is something that could likely be written up and
added in (and shared with other user's through the tool shed).
For
Hello Olivier,
The first place to start is to change the metadata for the history items
so that the filetype is .fastq. Do this by clicking on the pencil icon
for each dataset, change the filetype, and save. Or, rename the files
before transfer.
If there are still problems, double check the
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