CI
cd5554d22f
Build pipeline: vsh-ci-build-template-k4qzr
Source commit: 173327cc56
Source message: Cellranger multi conversion: fix combined AB + CB probe experiments (#1062)
58 lines
2.0 KiB
JSON
58 lines
2.0 KiB
JSON
{
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"$schema": "https://json-schema.org/draft/2020-12/schema",
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"title": "cellranger_mkgtf",
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"description": "Make a GTF file - filter by a specific attribute.",
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"type": "object",
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"$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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"input_gtf": {
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"type": "string",
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"format": "path",
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"exists": true,
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"description": "Reference GTF annotation.",
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"help_text": "Type: `file`, multiple: `False`, required, direction: `input`, example: `\"transcriptome_annotation.gtf.gz\"`. "
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},
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"output_gtf": {
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"type": "string",
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"format": "path",
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"description": "Output GTF file.",
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"help_text": "Type: `file`, multiple: `False`, required, default: `\"$id.$key.output_gtf.gz\"`, direction: `output`, example: `\"output.gtf.gz\"`. ",
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"default": "$id.$key.output_gtf.gz"
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},
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"attribute": {
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"type": "array",
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"items": {
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"type": "string"
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},
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"description": "Key-value pair in attributes field to be kept in the GTF file of the format attribute:attribute_value.",
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"help_text": "Type: `string`, multiple: `True`, required, example: `[\"gene_type:transcribed_unprocessed_pseudogene\";\"gene_type:miRNA\"]`. "
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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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