Gregor Sturm
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2ad98162f3
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Notebook modules (#617)
* Draft rmarkdown module
* stub jupyter notebook module
* Create yaml file with params
* Update meta.yml for rmarkdown module
* Add comment on YAML
* Update notebooks module, clean up parametrize.nf
* Two separate channels for parameters and input files
* Fix Rmd render script
* Add tests for rmarkdown
* Fix tests for rmarkdown module
* Update checksums
* Fix tests for jupyter
* Test without Grab()
* Update software versions
* update rmarkdown dependencies
* Draft for multiple versions
* Fix indent of script
* Fix indent in rmarkdown script
* Emit version.syml
* Update modules/rmarkdown/main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/rmarkdown/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/rmarkdown/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Rename rmarkdown to rmarkdownnotebook
* Add rmarkdown mulled biocontainer
* Write sessionInfo to separate log file
* Update rmarkdownnotebook
* Sessioninfo does not have a stable md5sum
* Update jupyternotebook
* Update meta
* Add jupyternotebook biocontainers
* Handle Groovy Gstrings in parameterize
* Update to versions.yml
* Update functions.nf
* Fix versions yaml
* Fix EC lint
* Update modules/rmarkdownnotebook/main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/jupyternotebook/main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Use official test data
* Harshilify
* Make parameters channel clearer
* Apply suggestions from code review
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Apply suggestions from code review
* Update main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-10-24 20:51:56 +02:00 |
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