CI
cd5554d22f
Build pipeline: vsh-ci-build-template-k4qzr
Source commit: 173327cc56
Source message: Cellranger multi conversion: fix combined AB + CB probe experiments (#1062)
84 lines
3.0 KiB
JSON
84 lines
3.0 KiB
JSON
{
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"$schema": "https://json-schema.org/draft/2020-12/schema",
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"title": "make_params",
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"description": "Looks for files in a directory and turn it in a params file.",
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"type": "object",
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"$defs": {
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"arguments": {
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"title": "Arguments",
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"type": "object",
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"description": "No description",
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"properties": {
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"base_dir": {
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"type": "string",
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"format": "path",
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"exists": true,
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"description": "Base directory to search recursively",
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"help_text": "Type: `file`, multiple: `False`, required, direction: `input`, example: `\"/path/to/dir\"`. "
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},
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"pattern": {
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"type": "string",
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"description": "An optional regular expression",
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"help_text": "Type: `string`, multiple: `False`, required, example: `\"*.fastq.gz\"`. "
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},
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"n_dirname_drop": {
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"type": "integer",
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"description": "For every matched file, the parent directory will be traversed N times.",
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"help_text": "Type: `integer`, multiple: `False`, default: `0`. ",
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"default": 0
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},
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"n_basename_id": {
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"type": "integer",
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"description": "The unique identifiers will consist of at least N dirnames.",
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"help_text": "Type: `integer`, multiple: `False`, default: `0`. ",
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"default": 0
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},
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"id_name": {
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"type": "string",
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"description": "The name for storing the identifier field in the yaml.",
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"help_text": "Type: `string`, multiple: `False`, default: `\"id\"`. ",
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"default": "id"
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},
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"path_name": {
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"type": "string",
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"description": "The name for storing the path field in the yaml.",
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"help_text": "Type: `string`, multiple: `False`, default: `\"path\"`. ",
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"default": "path"
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},
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"group_name": {
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"type": "string",
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"description": "Top level name for the group of entries.",
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"help_text": "Type: `string`, multiple: `False`, example: `\"param_list\"`. "
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},
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"output": {
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"type": "string",
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"format": "path",
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"description": "Output YAML file.",
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"help_text": "Type: `file`, multiple: `False`, required, default: `\"$id.$key.output.yaml\"`, direction: `output`, example: `\"params.yaml\"`. ",
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"default": "$id.$key.output.yaml"
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}
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}
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},
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"nextflow input-output arguments": {
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"title": "Nextflow input-output arguments",
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"type": "object",
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"description": "Input/output parameters for Nextflow itself. Please note that both publishDir and publish_dir are supported but at least one has to be configured.",
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"properties": {
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"publish_dir": {
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"type": "string",
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"description": "Path to an output directory.",
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"help_text": "Type: `string`, multiple: `False`, required, example: `\"output/\"`. "
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}
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}
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}
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},
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"allOf": [
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{
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"$ref": "#/$defs/arguments"
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},
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{
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"$ref": "#/$defs/nextflow input-output arguments"
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}
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]
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}
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