workflows-nextflow

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Update environment.yml

1

update environment.tml add Graphviz fixes #143

ggrimes

Graphviz installation is not part of the setup instructions, but is needed for the last exercise.

ggrimes

Nextflow review @bobturneruk ep11, Ternary operators

1

Ternary operators should be explained more fully if the term is to be used.

ggrimes

I get this error when running script6: ``` Error executing process > 'MULTIQC' Caused by: Process `MULTIQC` terminated with an error exit status (1) Command executed: multiqc . Command exit...

ggrimes

The FASTQC process will not run as the process has not been declared in the workflow scope." - is this the same definition of "scope" as used earlier? Is there...

ggrimes

Nextflow review @bobturneruk ep11, recap

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Is it the intention that this episode re-explains lots of content from previous episodes? For example parameters and processes are covered as if new content. Perhaps there is scope to...

ggrimes

Update 10-workflow_checkpoint_caching.md

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update work directory file descriptions for issue #137

ggrimes

Nextflow review @bobturneruk ep10, definition of command wrapper

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I'm not completely clear on what "The command wrapped used to run the job." means. As far as I can tell by searching, the definition of `.command.run` is not in...

ggrimes

When I first tried the Conda exercise I got this error: ``` Error executing process > 'FASTP (1)' Caused by: Failed to create Conda environment command: conda create --mkdir --yes...

ggrimes

The final exercise in this episode is the same as the preceding content. Maybe best to omit the exercise, or give the markdown example and ask learners to modify the...

ggrimes