config.json

{
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            "name": "input",
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            "required": true,
            "allow_multiple": false
        },
        {
            "name": "goldstandard_dir",
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            "allow_multiple": false
        },
        {
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        },
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            "value": "OpEBUSER5cc02033c429d_5d0357aad8c180.12103256_dummy",
            "required": true,
            "allow_multiple": false
        }
    ],
    "arguments": [
        {
            "name": "execution",
            "value": "LRGASP-test"
        },
        {
            "name": "project",
            "value": "LRGASP-test"
        },
        {
            "name": "description",
            "value": "Test run"
        },
        {
            "name": "nextflow_repo_uri",
            "value": "https://github.com/TianYuan-Liu/lrgasp-challenge-3_benchmarking_workflow.git"
        },
        {
            "name": "nextflow_repo_tag",
            "value": "9e5a3c2b174b488629a4f3c5ee790ebb1e0c4c4f"
        },
        {
            "name": "community_id",
            "value": "OEBC010"
        },
        {
            "name": "challenges_ids",
            "value": "mouse_len mouse_%_BUSCO_gene_found_vs_complete mouse_%_canonical_SJ_vs_%_SJ_SR_coverage mouse_trans mouse_%_trans_with_intra-priming_vs_rt_switching mouse_%_CAGE_vs_%_QuantSeq_supp_trans mouse_num_trans_vs_with_coding_potential mouse_sirvs mouse_FSM mouse_ISM mouse_NIC mouse_NNC mouse_Antisense mouse_Fusion mouse_GenicGenomic mouse_GenicIntron mouse_Intergenic"
        },
        {
            "name": "participant_id",
            "value": "fake_pipeline_test"
        }
    ],
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            "file": {
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                "data_type": "validated_participant",
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                }
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        },
        {
            "name": "assessment_results",
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            "allow_multiple": false,
            "file": {
                "file_type": "JSON",
                "file_path": "LRGASP-test/Assessment_datasets.json",
                "data_type": "assessment",
                "compressed": "null",
                "meta_data": {
                    "description": "Metrics derivated from the given input data",
                    "tool": "TCGA_CD",
                    "visible": true
                }
            }
        },
        {
            "name": "data_model_export_dir",
            "required": true,
            "allow_multiple": false,
            "file": {
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                "file_path": "LRGASP-test/consolidated_results.json",
                "data_type": "consolidated_benchmark_dataset",
                "compressed": "null",
                "meta_data": {
                    "description": "Aggregation of minimal datasets ready to be used by the OEB pushing tool",
                    "tool": "TCGA_CD",
                    "visible": true
                }
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        },
        {
            "name": "augmented_assess_dir",
            "required": true,
            "allow_multiple": false,
            "file": {
                "file_type": "JSON",
                "file_path": "LRGASP-test/augmented_data",
                "data_type": "consolidated_benchmark_dataset",
                "compressed": "null",
                "meta_data": {
                    "description": "Aggregation of minimal datasets ready to be used by the OEB pushing tool",
                    "tool": "TCGA_CD",
                    "visible": true
                }
            }
		},
        {
            "name": "tar_view",
            "required": true,
            "allow_multiple": false,
            "custom_visualizer": true,
            "file": {
                "file_type": "TAR",
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                    "description": "Data for metrics visualizer",
                    "tool": "TCGA_CD",
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                }
            }
        },
        {
            "name": "tar_nf_stats",
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            "file": {
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        },
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            "name": "tar_other",
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            "file": {
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                "meta_data": {
                    "description": "Other execution associated data",
                    "tool": "TCGA_CD",
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                }
            }
        },
        {
            "name": "report_images",
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            "allow_multiple": true,
            "file": {
                "file_type": "IMG",
                "data_type": "report_image",
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}