CI
50ab36217a
Build pipeline: viash-hub.demultiplex.main-wxzkf
Source commit: 6e71519815
Source message: Replace Falco with FastQC (#51)
119 lines
4.0 KiB
JSON
119 lines
4.0 KiB
JSON
{
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"$schema": "https://json-schema.org/draft/2020-12/schema",
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"title": "publish",
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"description": "Publish the processed results of the run",
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"type": "object",
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"$defs": {
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"input arguments": {
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"title": "Input arguments",
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"type": "object",
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"description": "No description",
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"properties": {
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"input": {
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"type": "string",
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"format": "path",
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"exists": true,
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"description": "Directory to write fastq data to",
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"help_text": "Type: `file`, multiple: `False`, required, direction: `input`. "
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},
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"input_sample_qc": {
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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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"format": "path",
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"exists": true,
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"description": "Directory to write sample QC output to",
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"help_text": "Type: `file`, multiple: `True`, required, direction: `input`. "
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},
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"input_multiqc": {
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"type": "string",
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"format": "path",
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"exists": true,
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"description": "Location where to write the MultiQC report to.",
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"help_text": "Type: `file`, multiple: `False`, required, direction: `input`. "
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},
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"input_run_information": {
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"type": "string",
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"format": "path",
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"exists": true,
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"description": "Location where to write the run information to.",
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"help_text": "Type: `file`, multiple: `False`, required, direction: `input`. "
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},
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"input_demultiplexer_logs": {
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"type": "string",
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"format": "path",
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"exists": true,
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"description": "",
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"help_text": "Type: `file`, multiple: `False`, required, direction: `input`. "
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}
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}
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},
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"output arguments": {
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"title": "Output arguments",
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"type": "object",
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"description": "No description",
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"properties": {
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"output": {
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"type": "string",
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"format": "path",
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"description": "",
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"help_text": "Type: `file`, multiple: `False`, default: `\"fastq\"`, direction: `output`. ",
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"default": "fastq"
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},
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"output_sample_qc": {
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"type": "string",
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"format": "path",
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"description": "",
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"help_text": "Type: `file`, multiple: `False`, default: `\"qc/fastqc\"`, direction: `output`. ",
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"default": "qc/fastqc"
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},
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"output_multiqc": {
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"type": "string",
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"format": "path",
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"description": "",
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"help_text": "Type: `file`, multiple: `False`, default: `\"qc/multiqc_report.html\"`, direction: `output`. ",
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"default": "qc/multiqc_report.html"
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},
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"output_run_information": {
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"type": "string",
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"format": "path",
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"description": "",
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"help_text": "Type: `file`, multiple: `False`, default: `\"run_information.csv\"`, direction: `output`. ",
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"default": "run_information.csv"
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},
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"output_demultiplexer_logs": {
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"type": "string",
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"format": "path",
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"description": "",
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"help_text": "Type: `file`, multiple: `False`, default: `\"demultiplexer_logs\"`, direction: `output`. ",
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"default": "demultiplexer_logs"
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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/input arguments"
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},
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{
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"$ref": "#/$defs/output 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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