On Mon, May 18, 2015 at 1:55 PM, Brian Haas bh...@broadinstitute.org wrote:
Thanks, Peter! I've verified that I can get your code to work - bundling
the composite files. I'll keep plugging away at my little example and see
if I can figure out what's going awry.
more later. Thx again!
I've uploaded my simple example here:
https://github.com/brianjohnhaas/galaxy_composite_datatype_test
I can't seem to get it to bundle the output files no matter what I've
tried. Help is much appreciated. :)
best,
~brian
___
Please keep
Thanks, Peter! I've verified that I can get your code to work - bundling
the composite files. I'll keep plugging away at my little example and see
if I can figure out what's going awry.
more later. Thx again!
~brian
___
Please keep all
Hi,
I have configured apache as reverse proxy for galaxy and I also configured
apache to access my openldap for authentication. It's working fine but I
was getting some trouble to logout the users as explained in the
documentation here
Hi Brian,
Your original email with attachments has made it to the list now,
http://dev.list.galaxyproject.org/difficulty-creating-composite-data-type-tp4667193.html
Title: difficulty creating composite data type
Peter
On Mon, May 18, 2015 at 2:25 PM, Brian Haas bh...@broadinstitute.org wrote:
Fantastic!
I've actually made a few changes. I'm putting my latest code up on github
now and will share it in just a moment. It'll be much easier this way -
as you suggested.
best,
~brian
On Mon, May 18, 2015 at 9:58 AM, Peter Cock p.j.a.c...@googlemail.com
wrote:
Hi Brian,
Your
Hi Peter,
I'm actually more confused now that I was when I started... I was able to
get your code working, focusing on the 'makeblastdb' with a nucleotide
fasta file. I figured that experimenting with this example would lead to
some key insights, particularly by dropping certain files that are
I'm trying to create a tool that user's can use that will interact with
Galaxy 's API, however the tool needs to be able to determine the user's
API key.Is this possible? Can a tool determine what the user's API key
is when the user actually runs the tool?
I always recommend installing a virtualenv for Galaxy - and it should
be pretty easy to install ldap into that with pip. But you are
certainly right - longer term it probably makes sense to create a
dynamic egg for this (for consistency if no other reason). I have
created a Trello issue for that
THANK YOU!!! :)
The fundamental piece that I was missing at:
https://wiki.galaxyproject.org/Admin/Datatypes/Composite%20Datatypes
was the
commandsomeTool.sh $input1 ${os.path.join( input1.extra_files_path,
'results.txt' )} ${os.path.join( input1.extra_files_path,
'results.dat' )}
I've updated my code, which now generates the .extra_files directory:
https://github.com/brianjohnhaas/galaxy_composite_datatype_test
I'm now trying to get the
composite_type = 'auto_primary_file*' *to work, but all I'm getting is an
empty file. My module code simply includes:
class
On Sun, May 17, 2015 at 5:44 PM, Brian Haas bh...@broadinstitute.org wrote:
Greetings.
Does anyone per chance have a simple working example of using composite data
types? I've gotten as far as I can with the galaxy documentation, and I
can't seem to get the additional files bundled into an
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