zavolanlab / zarp-cli

A user-friendly command-line interface for the ZARP RNA-seq analysis workflow
https://zavolanlab.github.io/zarp-cli/
Apache License 2.0
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feat: infer missing metadata #60

Closed balajtimate closed 1 year ago

balajtimate commented 1 year ago

Fixes #34

Type of change

Checklist

codecov[bot] commented 1 year ago

Codecov Report

Patch coverage: 100.00% and no project coverage change.

Comparison is base (6bdefa1) 100.00% compared to head (9e47707) 100.00%.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## dev #60 +/- ## ========================================= Coverage 100.00% 100.00% ========================================= Files 22 22 Lines 1151 1185 +34 ========================================= + Hits 1151 1185 +34 ``` | [Impacted Files](https://app.codecov.io/gh/zavolanlab/zarp-cli/pull/60?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab) | Coverage Δ | | |---|---|---| | [zarp/config/args.py](https://app.codecov.io/gh/zavolanlab/zarp-cli/pull/60?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-emFycC9jb25maWcvYXJncy5weQ==) | `100.00% <ø> (ø)` | | | [zarp/config/models.py](https://app.codecov.io/gh/zavolanlab/zarp-cli/pull/60?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-emFycC9jb25maWcvbW9kZWxzLnB5) | `100.00% <100.00%> (ø)` | | | [zarp/plugins/sample\_processors/htsinfer.py](https://app.codecov.io/gh/zavolanlab/zarp-cli/pull/60?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-emFycC9wbHVnaW5zL3NhbXBsZV9wcm9jZXNzb3JzL2h0c2luZmVyLnB5) | `100.00% <100.00%> (ø)` | | | [zarp/snakemake/run.py](https://app.codecov.io/gh/zavolanlab/zarp-cli/pull/60?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=zavolanlab#diff-emFycC9zbmFrZW1ha2UvcnVuLnB5) | `100.00% <100.00%> (ø)` | |

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balajtimate commented 1 year ago

Removed --htsinfer-config from args.py, models.py and the config yaml file. Also added DRY_RUN execution mode compatibility to the HTSinfer plugin.