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nextflow-io
Nextflow training material
Normally the little icon to top right you can visualise the HTML code. Useful for the Multiqc exercise in rnaseq section. Maybe we need to add a specific Gitpod extension...
The following pipeline stopped working: ``` nextflow run rnaseq-nf -with-docker -with-report -with-trace -with-timeline -with-dag dag.png ``` It works if one specifies the `dev` revision with `-r dev`, but this is...
Idea for improvements from Training 27-29th September 2022 1. Add dsl v1 section for explanation of poison pill. e.g. channel.view() vs println(channel), should run -dsl1 to the nextflow command so...
this is only to validate the quizz asciidoctor plugin
E.g. Use of a parameter in rnaseq tutorial directly as input of process (e.g. INDEX(params.transcriptome_file)), means we do not classify the input as a path, so custom input paths fail.
Still many of the examples do not work, which is fine for hypothetical, but would be cooler if they actually process data too. E.g. Blast run Section:6.4.
Remove intermediate branches. We should keep the current DSL1 version, plus the default DSL2, and one primitive early branch (?).
Currently we just show an example with the AWS version. It would be nice to show this working on Gitpod/local way