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fix indent error, avoiding html tag confusion (#1393)

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Matthias Hörtenhuber 2022-03-15 11:56:42 +01:00 committed by GitHub
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1 changed files with 49 additions and 49 deletions
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64
modules/controlfreec/meta.yml
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@ -20,50 +20,50 @@ input:
type: map
description: |
Groovy Map containing tool parameters. MUST follow the structure/keywords below and be provided via modules.config.
<optional> parameters can be removed from the map, if they are not set. All value must be surrounded by quotes, meta map parameters can be set with, i.e. sex = meta.sex:
Parameters marked as (optional) can be removed from the map, if they are not set. All values must be surrounded by quotes, meta map parameters can be set with, i.e. `sex = meta.sex`:
For default values, please check the documentation above.
```
{
[
"general" :[
"bedgraphoutput": <optional>,
"breakpointthreshold": <optional>,
"breakpointtype": <optional>,
"coefficientofvariation": <optional>,
"contamination": <optional>,
"contaminationadjustment": <optional>,
"degree": <optional>,
"forcegccontentnormalization": <optional>,
"gccontentprofile": <optional>,
"intercept": <optional>,
"mincnalength": <optional>,
"minmappabilityperwindow": <optional>,
"minexpectedgc": <optional>,
"maxexpectedgc": <optional>,
"minimalsubclonepresence": <optional>,
"noisydata": <optional>,
"ploidy": <optional>,
"printNA": <optional>,
"readcountthreshold": <optional >,
"sex": <optional>,
"step": <optional value>,
"telocentromeric": <optional>,
"uniquematch": <optional>,
"window": <optional>
"bedgraphoutput": (optional),
"breakpointthreshold": (optional),
"breakpointtype": (optional),
"coefficientofvariation": (optional),
"contamination": (optional),
"contaminationadjustment": (optional),
"degree": (optional),
"forcegccontentnormalization": (optional),
"gccontentprofile": (optional),
"intercept": (optional),
"mincnalength": (optional),
"minmappabilityperwindow": (optional),
"minexpectedgc": (optional),
"maxexpectedgc": (optional),
"minimalsubclonepresence": (optional),
"noisydata": (optional),
"ploidy": (optional),
"printNA": (optional),
"readcountthreshold": (optional),
"sex": (optional),
"step": (optional),
"telocentromeric": (optional),
"uniquematch": (optional),
"window": (optional)
],
"control":[
"inputformat": <required>,
"mateorientation": <optional>,
"inputformat": (required),
"mateorientation": (optional),
],
"sample":[
"inputformat": <required>,
"mateorientation": <optional>,
"inputformat": (required),
"mateorientation": (optional),
],
"BAF":[
"minimalcoverageperposition": <optional>,
"minimalqualityperposition": <optional>,
"shiftinquality": <optional>
"minimalcoverageperposition": (optional),
"minimalqualityperposition": (optional),
"shiftinquality": (optional)
]
]
}