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Topic Title: Batch Analysis on Cluster fails with error ending
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Created On: 10/22/2018 8:39 AM
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 10/22/2018 8:39 AM
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Posts: 33
Joined: 5/9/2014

A delay in the writing of the results file ( to the shared file system can cause one or more of the following errors leading to a failure of batch analysis:

Timeout: File is not a valid zip file

URL is not a file:

These errors are also captured in the following log on the Columbus server:


In vesions of ColumbusPlus up to 2.8.2 the following file on the server can be modified to increase the amount of time before reading the file:


For example change line 173 from:

submit_results_to_columbus.apply_async((job, cluster_conf_dir), countdown=5)


submit_results_to_columbus.apply_async((job, cluster_conf_dir), countdown=30)

This example increases the countdown time to 30 seconds. After changing restart Columbus for changes to take effect:

$ /etc/init.d/columbus restart

If approximate the amount of time it took to write the successfully try the following:

- From the error message copy the path to the file

- On the Columbus server navigate to this directory that contains the

- In this path you should find a postprocessing directory containing a DONE file (this is written after the file has completed)

- Use the following command to get the status of the file

$ stat DONE

- Calculate the different between the time of the error (long_tasks.log) and the 'Modify' date of the file to get an estimate of the additional time required.

In versions above 2.8.2 the strategy to check the results is changed further. It features as timeout on line 50 of aforementioned file. In light of new strategy it is highly unlikely this value needs to be changed but is shown here for reference.

Edited: 2/28/2020 at 9:29 AM by Jace

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