Reassess diversity metrics without running entire MetaPhage once again

[mattiapandolfovr]

Reassess diversity metrics without running entire MetaPhage once again

[MattiaPandolfoVR]

Hi there @theKineto,
You should be able to do it by changing the alpha_var and beta_var variables (in your .config file or passing it by command line if you prefer), then adding the -resume option to the command you used to launch the pipeline (e.g. nextflow run main.nf ...youroptions... -resume).
Please be aware that this will overwrite the previous alpha and beta diversity files in your output folder, so be sure to save them somewhere else first!
If this doesn't work (nextflow -resume is a bit tricky), you could try to force it by removing the subdirectories where alpha and beta diversity processes were run, in the MetaPhage work directory. You can find these subdirectories by looking at the hash code related to the process, as shown in the figure i attach below.
You can see in the example that the alpha_diversity and the beta_diversity processes hash codes are e9/3e3e40 and c7/9aa316. These codes identify the related subdirectories in work (e.g. ~/MetaPhage/work/e9/3e3e40) that you should remove, before running the pipeline with -resume.
Let me know if this work!

[AntonChechushkov]

Hi @MattiaPandolfoVR,
-resume has worked out!
I initially thought <-resume> provides just unfinished processes, not rebuilding or reassessment. That's the great option.
Thank You!