Hi Greg,
After restarting the galaxy instance to get a hold on the starting
log, sqlite now shows up in the upload form. I was able to reproduce
this behavior in a clean instance.
The problem now is I'm back to getting:
"An error occurred running this job: The uploaded binary file contains
inappr
Is your datatype lading into your Galaxy instance correctly (either when you
start your Galaxy instance or when you install your tool from the tool shed)?
If so, it should be displaying in the upload form. What does your paster log
say?
On Feb 29, 2012, at 1:06 PM, Carlos Borroto wrote:
> H
On Wed, Feb 29, 2012 at 12:28 PM, Peter Cock wrote:
> On Wed, Feb 29, 2012 at 5:14 PM, Greg Von Kuster wrote:
>> Hi Carlos,
>>
>> You can certainly add support for a sqlite database datatype to your local
>> galaxy instance. As you say, it may be no more complex / fragile than h5
>> or other bin
Hi Greg,
I did follow that link and I think the datatypes_conf.xml in the tool
repository is correctly written:
I thought by adding display_in_upload="true" that would make the
datatype to appear as an option when uploading a file, but this is not
happening. Do I need to declare typ
On Wed, Feb 29, 2012 at 5:14 PM, Greg Von Kuster wrote:
> Hi Carlos,
>
> You can certainly add support for a sqlite database datatype to your local
> galaxy instance. As you say, it may be no more complex / fragile than h5
> or other binary datatypes - I've not gone far enough down the analysis p
Hi Carlos,
You can certainly add support for a sqlite database datatype to your local
galaxy instance. As you say, it may be no more complex / fragile than h5 or
other binary datatypes - I've not gone far enough down the analysis path to
provide good reasons why it may or may not be reasonable
Hi Greg,
Thanks for looking and resolving this issue. After deleting all the
files in the repo and re-adding them, everything is working as
expected.
Please see my comments inline about the other two issues.
On Tue, Feb 28, 2012 at 1:57 PM, Greg Von Kuster wrote:
> Hi Carlos,
>
> I've uploaded
Hi Carlos,
I've uploaded a fix for the problem you saw when attempting to reset all
metadata on your cummerbund tool. Thanks for reporting this issue.
Looking at your change sets, it seems that you are attempting to use the public
tool shed hosted by Penn State as a source code repository for
Hi Greg,
Thanks for your answer. Would be great to get the tool to preview
correctly but is not a big deal.
I'm having a few more problems. I'm getting this error from time to
time when I do "hg push" or even when I delete all files from the
toolshed and upload new ones:
"Version information for
Hi Carlos,
Not every tool form parameter will properly display when previewing the tool in
the tool shed because the tool shed doesn't have access to some Galaxy
components (e.g., a Galaxy history ) that are required for some tool parameter
types. When I get a chance, I'll take a closer look,
Hi,
I'm currently developing my first Galaxy tool. I'm working on a
wrapper for R's library cummeRbund[1]. I got to the point where the
tool although incomplete on functionality, I think is ready to be
uploaded to the Toolshed. I was able to do so. I also made sure I
could then install it on my lo
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