Resource reporting

Since each MOP pipeline is based on Nextflow we can use its embedded functions for reporting the use of resources as a html file and to have a live reporting.

Html report

For enabling the generation of a report just run each pipeline with the parameter -with-report as in the following example:

nextflow run mop_preprocess.nf -profile local -with-docker -bg -with-report

Once the pipeline is finished you will have a comprehensive report with information about CPU, disk and memory usage for each execution and as a distribution for each process. Here an example:

Live reporting

For having a live reporting your pipeline should run in an environment that has access to internet. Then you have to log-in to the Tower.nf website that is developed and mantained by the good people at Seqera Labs.

We suggest you to use either the GitHub or the Google authentication:

You can generate your token at https://tower.nf/tokens and

then you can export as an environmental variable.

export TOWER_ACCESS_TOKEN=*******YOUR***TOKEN*****HERE*******

Tip

We recommend you to add this line to either your .bashrc or .bash_profile file.

Finally we can then launch the pipeline adding the parameter -with-tower.

nextflow run mop_preprocess.nf -profile local -with-docker -bg -with-tower

Going back to the website you can see now your pipeline running and have a nice looking live reporting.