Comments (3)
As you might notice on the disclaimer that wiki page, that page is for the legacy versions of V-pipe (1.00, 2.00 and sars-cov2 branch) as back when Susie published doi:10.1093/bioinformatics/btab015.
The more recent versions of V-pipe (2.99.0, 2.99.1 and master branch) have a full manual of their configuration autogenerated in config/config.html
(*), and a short introduction in the README.md of the same directory.
But indeed: @kpj and I have forgotten to run the autogeneration script (utils/create_config_doc
). 😅
It's not yet triggered autonomously by github actions.
I'll do it shortly.
(*): There's currently a bug in the htmlpreview.github.io servive (CSS file are blocked due to being served with the wrong MIME type) and it's not possible to display the sections of the manual. You have to open it locally.
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config/config.html
updated in 02ce515.
There is no change in code, it's only documentation text, you don't need to wait for the docker to finish updating.
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As a side note, I would recommend that you find a similar way to leverage the config schema when you implement the user interface at USZ:
it should be possible to build the option interface using this.
(The people at Sapporo are also thinking out these kind of approaches for their web interface).
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Related Issues (20)
- Haplotype percentage or frequency estimation
- The order of jobs does not reflect the order of execution. Any help? HOT 1
- wrong url for release download in quick install HOT 2
- Running with tutorial dataset giving all empty file HOT 6
- Getting snake error HOT 23
- SARS-CoV-2 workflow comparison - kindly check if your work is represented correctly HOT 1
- Warning: All reads at position 4045 in the same reverse orientation ? HOT 1
- Conflict in quality_assurance.smk with custom datadir-path
- frameshift_deletion_checks, simBench & Haplotype callers HOT 6
- [UX issue] unknown keywords in config file HOT 1
- [UX issue] multiple GFF HOT 1
- predicthaplo does not work on sars-cov-2 tutorial HOT 1
- hiv-tutorial works with haploclique, but fails with predicthaplo
- hiv-tutorial fails with haplotype_reconstruction: savage, and SAVAGE command output is dumped into terminal instead of log
- Error in rule hmm_align: HIV in Vpipe HOT 2
- Missing input files for rule generate_web_visualization
- vpipe broken? ModuleNotFoundError: No module named 'pandas' HOT 2
- Activating snv in sars tutorial leads to error HOT 2
- Snakemake dry run 404 HOT 9
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