Question: Output file created but not seen
0
gravatar for md
2.3 years ago by
md • 0
md • 0 wrote:

Hi,

my output file doesn't appear on my Galaxy interface (local instance)... The output file is created in the ~/galaxy/database/files directory and named dataset_14464.dat.xls. As it is an Excel file, I add in the galaxy.ini :

xls = galaxy.datatypes.data:Data,application/vnd.ms-excelr

and restart Galaxy.

In my wrapper, I wrote :

<outputs>

    <data name="output" label="${tool.name} on ${on_string}: annotated file" format="xls" />

</outputs>

When I run the tools, I there is no error (green color) but the feature size is 'empty', there is no "download" icon. I think the solution is basic but I don't see it until now. The file is correct : if I download it from my computer and open with Excel, it's nice.

I obtain same results if my output file is a xlsx file (created file, named dataset_1234.dat.xlsx), with unmodified galaxy.ini, with or not 'format="xlsx" in the wrapper'.

Could anyone help me? Thanks!

galaxy • 649 views
ADD COMMENT • link • modified 2.3 years ago • written 2.3 years ago by md • 0
0
gravatar for Hotz, Hans-Rudolf
2.3 years ago by
Switzerland
Hotz, Hans-Rudolf • 1.8k wrote:

Hi

make sure your tool does not add '.xls' to the file.

Regards, Hans-Rudolf

ADD COMMENT • link written 2.3 years ago by Hotz, Hans-Rudolf • 1.8k
0
gravatar for md
2.3 years ago by
md • 0
md • 0 wrote:

Thanks very much Hotz! Indeed the tools added the '.xls' :-/ Best regards,

Emmanuelle

ADD COMMENT • link written 2.3 years ago by md • 0
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