From f655f4ce70e2ea5136207b7df22eb35935b1c996 Mon Sep 17 00:00:00 2001
From: Caroline Ott <caroline.ott1994@gmail.com>
Date: Mon, 27 May 2024 13:18:42 +0200
Subject: [PATCH] add example roc metadata
---
.arc/roc-metadata-fixed-script.json | 189 ++++++++++++++++++++++++++++
1 file changed, 189 insertions(+)
create mode 100644 .arc/roc-metadata-fixed-script.json
diff --git a/.arc/roc-metadata-fixed-script.json b/.arc/roc-metadata-fixed-script.json
new file mode 100644
index 0000000..ca8cd51
--- /dev/null
+++ b/.arc/roc-metadata-fixed-script.json
@@ -0,0 +1,189 @@
+{ "@context": "https://w3id.org/ro/crate/1.1/context",
+ "@graph": [
+ {
+ "@type": "CreativeWork",
+ "@id": "ro-crate-metadata.json",
+ "conformsTo": { "@id": "https://w3id.org/ro/crate/1.1" },
+ "about": { "@id": "./" }
+ },
+ {
+ "@id": "./arc/workflows",
+ "@type": "Dataset",
+ "hasPart": [
+ { "@id": "workflows/workflow.cwl" }
+ ]
+ },
+ {
+ "@id": "workflows/workflow.cwl",
+ "@type": [ "File", "SoftwareSourceCode", "ComputationalWorkflow" ],
+ "conformsTo": { "@id": "https://bioschemas.org/profiles/ComputationalWorkflow/0.5-DRAFT-2020_07_21/" },
+ "name": "Column Addition",
+ "programmingLanguage": [
+ { "@id": "#FSharp" },
+ { "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl" }
+ ],
+ "creator": { "@id": "#timo" },
+ "dateCreated": "2024-02-05",
+ "input": [
+ { "@id": "#1" },
+ { "@id": "#2" }
+ ],
+ "output": [
+ { "@id": "#3" }
+ ]
+ },
+ {
+ "@id": "#1",
+ "@type": "FormalParameter",
+ "conformsTo": { "@id": "https://bioschemas.org/profiles/FormalParameter/0.1-DRAFT-2020_07_21/" },
+ "name": "intensity_table",
+ "valueRequired": true,
+ "additionalType": { "@id": "http://edamontology.org/data_2976" },
+ "format": { "@id": "http://edamontology.org/format_3752" }
+ },
+ {
+ "@id": "2",
+ "@type": "FormalParameter",
+ "conformsTo": { "@id": "https://bioschemas.org/profiles/FormalParameter/0.1-DRAFT-2020_07_21/" },
+ "name": "file_name"
+ },
+ {
+ "@id": "3",
+ "@type": "FormalParameter",
+ "conformsTo": { "@id": "https://bioschemas.org/profiles/FormalParameter/0.1-DRAFT-2020_07_21/" },
+ "name": "summed_intensities",
+ "additionalType": { "@id": "http://edamontology.org/data_2976" },
+ "encodingFormat": { "@id": "http://edamontology.org/format_3475" }
+ },
+ {
+ "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl",
+ "@type": "computerlanguage",
+ "name": "common workflow language",
+ "alternatename": "cwl",
+ "identifier": {
+ "@id": "https://w3id.org/cwl/v1.2/"
+ },
+ "url": {
+ "@id": "https://www.commonwl.org/"
+ }
+ },
+ {
+ "@id": "#FSharp",
+ "@type": "ProgrammingLanguage",
+ "name": "F Sharp",
+ "alternateName": "F#",
+ "url": "https://dotnet.microsoft.com/en-us/languages/fsharp",
+ "version": "6.0"
+ },
+ {
+ "@id": "#timo",
+ "@type": "Person",
+ "name": "Timo Mühlhaus"
+ },
+ {
+ "@id": "http://edamontology.org/format_3752",
+ "@type": "Thing",
+ "name": "Comma-separated values"
+ },
+ {
+ "@id": "http://edamontology.org/format_3475",
+ "@type": "Thing",
+ "name": "Tab-separated values"
+ },
+ {
+ "@id": "./arc/runs",
+ "@type": "Dataset",
+ "hasPart": [
+ { "@id": "runs" }
+ ]
+ },
+ {
+ "@id": "runs",
+ "@type": [ "File", "SoftwareSourceCode", "ComputationalWorkflow" ],
+ "conformsTo": { "@id": "https://bioschemas.org/profiles/ComputationalWorkflow/0.5-DRAFT-2020_07_21/" },
+ "name": "Column Addition",
+ "programmingLanguage": [
+ { "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl" }
+ ],
+ "creator": { "@id": "#timo" },
+ "dateCreated": "2024-02-05",
+ "about": [
+ {
+ "@id": "#Process_script.fsx",
+ "@type": [
+ "Process"
+ ],
+ "name": "script.fsx",
+ "parameterValues": [
+ {
+ "@id": "ARCtrl.Json.PropertyValue+ROCrate+genID@16[ARCtrl.Process.ProcessParameterValue]/{Name = \"Data Transformation\"}Some(Ontology\n {Name = \"Addition\"; TSR = \"NCIT\"; TAN = \"http://purl.obolibrary.org/obo/NCIT_C64911\"})",
+ "@type": "PropertyValue",
+ "additionalType": "ProcessParameterValue",
+ "category": "Data Transformation",
+ "value": "Addition",
+ "valueCode": "http://purl.obolibrary.org/obo/NCIT_C64911",
+ "@context": {
+ "sdo": "http://schema.org/",
+ "additionalType": "sdo:additionalType",
+ "category": "sdo:name",
+ "categoryCode": "sdo:propertyID",
+ "value": "sdo:value",
+ "valueCode": "sdo:valueReference",
+ "unit": "sdo:unitText",
+ "unitCode": "sdo:unitCode",
+ "comments": "sdo:disambiguatingDescription"
+ }
+ }
+ ],
+ "inputs": [
+ {
+ "@id": "./arc/assays/measurement1/dataset/table.csv",
+ "@type": [
+ "Data"
+ ],
+ "name": "./arc/assays/measurement1/dataset/table.csv",
+ "type": "Raw Data File",
+ "@context": {
+ "sdo": "http://schema.org/",
+ "Data": "sdo:MediaObject",
+ "type": "sdo:disambiguatingDescription",
+ "name": "sdo:name",
+ "comments": "sdo:comment"
+ }
+ }
+ ],
+ "outputs": [
+ {
+ "@id": "./arc/runs/fsResult1/result.csv",
+ "@type": [
+ "Data"
+ ],
+ "name": "./arc/runs/fsResult1/result.csv",
+ "type": "Derived Data File",
+ "@context": {
+ "sdo": "http://schema.org/",
+ "Data": "sdo:MediaObject",
+ "type": "sdo:disambiguatingDescription",
+ "name": "sdo:name",
+ "comments": "sdo:comment"
+ }
+ }
+ ],
+ "@context": {
+ "sdo": "http://schema.org/",
+ "bio": "https://bioschemas.org/",
+ "Process": "bio:LabProcess",
+ "name": "sdo:name",
+ "executesProtocol": "bio:executesLabProtocol",
+ "parameterValues": "bio:parameterValue",
+ "performer": "sdo:agent",
+ "date": "sdo:endTime",
+ "inputs": "sdo:object",
+ "outputs": "sdo:result",
+ "comments": "sdo:disambiguatingDescription"
+ }
+ }
+ ]
+ }
+ ]
+}
\ No newline at end of file
--
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