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NorwegianVeterinaryInstitute / Talos

A shotgun metagenomic analysis pipeline using nextflow
BSD 3-Clause "New" or "Revised" License
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Add longtime to the nonpareil processes #36

Closed Thomieh73 closed 4 years ago

Thomieh73 commented 4 years ago

When analyzing the airsample datasets, I have modifyied the number of selected reads to 1.5 million (less than 10% of the data) and it subsamples them to 150.000 reads to calculate statistics.

That causes the process to take much longer than 4 hours.. for each dataset.

with the current set-up I have now modified the script so that the process run_coverage now has an extra label longtime that extends the used time to 24 hours. if it needs more then I need to explore why it is so slow.

Thomieh73 commented 4 years ago

This has now been resolved. From now on I set the subsampling for large datasets like this: -X = 100000 -n = 2048.

The issue can be closed.