On Wed, Jul 10, 2013 at 1:38 PM, Himanshu Gupta himanshucs...@gmail.com wrote:
Hello everyone,
I had been using an old galaxy build, downloaded in 2010, on my local server
and now I am updating it to latest build. I had made some changes as per our
need. Along with the output file I have added a piece of code which was
making us able to download the stderr file as well in case. I had made those
changes inside the display function of
lib/galaxy/webapps/galaxy/controllers/dataset.py file. But galaxy have gone
through significant changes. Now the display function of
lib/galaxy/webapps/galaxy/controllers/dataset.py calls display_data
function.
def display(self, trans, dataset_id=None, preview=False, filename=None,
to_ext=None, chunk=None, **kwd):
...
return data.datatype.display_data(trans, data, preview, filename, to_ext,
chunk, **kwd)
display_data function is present in lib/galaxy/datatypes/data.py as well as
in lib/galaxy/datatypes/tabular.py
The code which I had changed in previous galaxy is present in /data.py
but the display function is calling the display_data function of
.../tabular.py always. How will I make it able to call display_data function
of /data.py
Please tell me the solution of the above problem or is there any better way
to download some more file like stdout, stderr apart from the regular output
file. Any help would be really appreciated.
P.S. I am creating stderr and stdout file inside database/user_directory
Thanks
Himanshu
Galaxy now saves stdout and stderr on its own (unless it is very large,
in which case that start and end only are kept), and this can be viewed
via the i information icon on each history entry.
Maybe that is enough and you can abandon your old modification?
Peter
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