Uploaded files not previewing at random

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Uploaded files not previewing at random

Sanka, Ravi
Greetings,

Since yesterday, I have been experiencing an unusual problem with Uploading files.

Seemingly at random, an uploaded will finish successfully (history item in green) but no preview is available. Under the title of the item, the keyword "empty" is found and preview box says "no peek". Such an item cannot be previewed or downloaded; attempts to do so result in this error displayed in the browser:

"""""""""""""""
OK

The requested URL /datasets/{API ID}/display/ was not found on this server.


Apache/2.2.25 (Unix) mod_ssl/2.2.25 OpenSSL/1.0.0-fips DAV/2 Server at <our galaxy URL> Port 80
"""""""""""""""

However, the Full Path of the item is still valid and, when viewed in command line, shows all the data. Furthermore, the item can still be used in tools and so forth.

I and other users have tried multiple attempts at uploading the exact, same file (a small FASTA) and the results are the same: sometimes this issue is present, other times it is not. There seems to be no pattern nor are there any errors in the paster.log.

----------------------------------------------
Ravi Sanka
ICS – Sr. Bioinformatics Engineer
J. Craig Venter Institute
301-795-7743
----------------------------------------------

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Re: Uploaded files not previewing at random

Nate Coraor (nate@bx.psu.edu)
Hi Ravi,

Are your datasets stored on a shared filesystem (e.g. NFS)? If yes,
you could try setting `retry_job_output_collection` to something > 0
in universe_wsgi.ini? NFS attribute caching can produce behavior like
this.

--nate

On Wed, Mar 5, 2014 at 11:46 AM, Sanka, Ravi <[hidden email]> wrote:

> Greetings,
>
> Since yesterday, I have been experiencing an unusual problem with Uploading
> files.
>
> Seemingly at random, an uploaded will finish successfully (history item in
> green) but no preview is available. Under the title of the item, the keyword
> "empty" is found and preview box says "no peek". Such an item cannot be
> previewed or downloaded; attempts to do so result in this error displayed in
> the browser:
>
> """""""""""""""
> OK
>
> The requested URL /datasets/{API ID}/display/ was not found on this server.
>
> ________________________________
> Apache/2.2.25 (Unix) mod_ssl/2.2.25 OpenSSL/1.0.0-fips DAV/2 Server at <our
> galaxy URL> Port 80
> """""""""""""""
>
> However, the Full Path of the item is still valid and, when viewed in
> command line, shows all the data. Furthermore, the item can still be used in
> tools and so forth.
>
> I and other users have tried multiple attempts at uploading the exact, same
> file (a small FASTA) and the results are the same: sometimes this issue is
> present, other times it is not. There seems to be no pattern nor are there
> any errors in the paster.log.
>
> ----------------------------------------------
> Ravi Sanka
> ICS - Sr. Bioinformatics Engineer
> J. Craig Venter Institute
> 301-795-7743
> ----------------------------------------------
>
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
> in your mail client.  To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>   http://lists.bx.psu.edu/
>
> To search Galaxy mailing lists use the unified search at:
>   http://galaxyproject.org/search/mailinglists/
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/