From 98039285d3520295f29ea8179279d10b156aed0b Mon Sep 17 00:00:00 2001 From: Rok Roskar <rok.roskar@sdsc.ethz.ch> Date: Thu, 27 May 2021 18:25:36 +0200 Subject: [PATCH] renku migrate: committing migrated workflow --- .renku/activity_index.yaml | 8 + ...570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml | 434 ++++++++++++++++++ .../e68067371d8047cf9d478ebb391283ea.cwl | 120 ----- 3 files changed, 442 insertions(+), 120 deletions(-) create mode 100644 .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml delete mode 100644 .renku/workflow/e68067371d8047cf9d478ebb391283ea.cwl diff --git a/.renku/activity_index.yaml b/.renku/activity_index.yaml index 9f88626eb..2dc7f08a2 100644 --- a/.renku/activity_index.yaml +++ b/.renku/activity_index.yaml @@ -183,6 +183,8 @@ data/covidtracking: - .renku/workflow/4a345925668f4136a9f59888dc883301_migrated.yaml 378f9004cc645ef99b4ccc1c87077529566bbd37: - .renku/workflow/750a5f8d88db45ef82d7b9d9bbcca408_migrated.yaml + 38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf: + - .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml 3a1860a9398ba1f6432384298c9979eb88c17647: - .renku/workflow/071270a3235b45d88e1c8739c7871806_migrated.yaml 3a725d2a279e86f6cc1d8c0afabc139c5c66bf9d: @@ -637,6 +639,8 @@ data/covidtracking/states-daily.json: - .renku/workflow/4a345925668f4136a9f59888dc883301_migrated.yaml 378f9004cc645ef99b4ccc1c87077529566bbd37: - .renku/workflow/750a5f8d88db45ef82d7b9d9bbcca408_migrated.yaml + 38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf: + - .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml 3a1860a9398ba1f6432384298c9979eb88c17647: - .renku/workflow/071270a3235b45d88e1c8739c7871806_migrated.yaml 3a725d2a279e86f6cc1d8c0afabc139c5c66bf9d: @@ -1082,6 +1086,8 @@ data/covidtracking/states-metadata.json: - .renku/workflow/4a345925668f4136a9f59888dc883301_migrated.yaml 378f9004cc645ef99b4ccc1c87077529566bbd37: - .renku/workflow/750a5f8d88db45ef82d7b9d9bbcca408_migrated.yaml + 38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf: + - .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml 3a1860a9398ba1f6432384298c9979eb88c17647: - .renku/workflow/071270a3235b45d88e1c8739c7871806_migrated.yaml 3a725d2a279e86f6cc1d8c0afabc139c5c66bf9d: @@ -2486,6 +2492,8 @@ runs/download-covidtracking-data.runs.ipynb: - .renku/workflow/4a345925668f4136a9f59888dc883301_migrated.yaml 378f9004cc645ef99b4ccc1c87077529566bbd37: - .renku/workflow/750a5f8d88db45ef82d7b9d9bbcca408_migrated.yaml + 38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf: + - .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml 3a1860a9398ba1f6432384298c9979eb88c17647: - .renku/workflow/071270a3235b45d88e1c8739c7871806_migrated.yaml 3a725d2a279e86f6cc1d8c0afabc139c5c66bf9d: diff --git a/.renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml b/.renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml new file mode 100644 index 000000000..a43f958c8 --- /dev/null +++ b/.renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml @@ -0,0 +1,434 @@ +- '@id': https://github.com/swissdatasciencecenter/renku-python/tree/v0.10.4 + '@type': + - http://purl.org/wf4ever/wfprov#WorkflowEngine + - http://www.w3.org/ns/prov#SoftwareAgent + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': renku 0.10.4 +- '@id': https://github.com/swissdatasciencecenter/renku-python/tree/v0.15.1 + '@type': + - http://purl.org/wf4ever/wfprov#WorkflowEngine + - http://www.w3.org/ns/prov#SoftwareAgent + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': renku 0.15.1 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + '@type': + - http://purl.org/wf4ever/wfprov#ProcessRun + - http://purl.org/wf4ever/wfprov#WorkflowRun + - http://www.w3.org/ns/prov#Activity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#comment: + - '@value': renku rerun data/covidtracking/states-metadata.json data/covidtracking/states-daily.json + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml@38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#atLocation: + - '@value': .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml + http://www.w3.org/ns/prov#endedAtTime: + - '@type': http://www.w3.org/2001/XMLSchema#dateTime + '@value': '2020-11-16T07:36:44+00:00' + http://www.w3.org/ns/prov#influenced: [] + http://www.w3.org/ns/prov#qualifiedAssociation: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/association + http://www.w3.org/ns/prov#qualifiedUsage: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/inputs/1 + http://www.w3.org/ns/prov#startedAtTime: + - '@type': http://www.w3.org/2001/XMLSchema#dateTime + '@value': '2020-11-16T07:36:44+00:00' + http://www.w3.org/ns/prov#wasAssociatedWith: + - '@id': mailto:beepbop@example.com + - '@id': https://github.com/swissdatasciencecenter/renku-python/tree/v0.15.1 + http://www.w3.org/ns/prov#wasInformedBy: + - '@id': https://localhost/activities/commit/3a382db2c74554da2fe532ad9edb1a0363c95deb +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/association + '@type': + - http://www.w3.org/ns/prov#Association + http://www.w3.org/ns/prov#agent: + - '@id': https://github.com/swissdatasciencecenter/renku-python/tree/v0.10.4 + http://www.w3.org/ns/prov#hadPlan: + - '@id': https://renkulab.io/runs/72fd82cf47645fd24962390c75f2e2d33bf147d9 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/inputs/1 + '@type': + - http://www.w3.org/ns/prov#Usage + http://www.w3.org/ns/prov#entity: + - '@id': https://renkulab.io/blob/d754df040a4bf8f7cb7ae6ed4151830f9bb0f520/notebooks/process/download-covidtracking-data.ipynb + http://www.w3.org/ns/prov#hadRole: + - '@value': steps/step_1/inputs/3 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1 + '@type': + - http://purl.org/wf4ever/wfprov#ProcessRun + - http://www.w3.org/ns/prov#Activity + http://purl.org/wf4ever/wfprov#wasPartOfWorkflowRun: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#comment: + - '@value': renku rerun data/covidtracking/states-metadata.json data/covidtracking/states-daily.json + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml@38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#atLocation: + - '@value': .renku/workflow/a4bd570af7aa4ee3b1fbbf6edd70edd9_migrated.yaml + http://www.w3.org/ns/prov#endedAtTime: + - '@type': http://www.w3.org/2001/XMLSchema#dateTime + '@value': '2020-11-16T07:36:44+00:00' + http://www.w3.org/ns/prov#influenced: [] + http://www.w3.org/ns/prov#qualifiedAssociation: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/association + http://www.w3.org/ns/prov#qualifiedUsage: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/inputs/3 + http://www.w3.org/ns/prov#startedAtTime: + - '@type': http://www.w3.org/2001/XMLSchema#dateTime + '@value': '2020-11-16T07:36:44+00:00' + http://www.w3.org/ns/prov#wasAssociatedWith: + - '@id': mailto:beepbop@example.com + - '@id': https://github.com/swissdatasciencecenter/renku-python/tree/v0.15.1 + http://www.w3.org/ns/prov#wasInformedBy: + - '@id': https://localhost/activities/commit/3a382db2c74554da2fe532ad9edb1a0363c95deb + https://swissdatasciencecenter.github.io/renku-ontology#hasRunParameter: [] +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/association + '@type': + - http://www.w3.org/ns/prov#Association + http://www.w3.org/ns/prov#agent: + - '@id': https://github.com/swissdatasciencecenter/renku-python/tree/v0.10.4 + http://www.w3.org/ns/prov#hadPlan: + - '@id': https://renkulab.io/runs/1f9e09b0e9e53a4c8cc5134a20ab47a18ed48f52 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/inputs/3 + '@type': + - http://www.w3.org/ns/prov#Usage + http://www.w3.org/ns/prov#entity: + - '@id': https://renkulab.io/blob/d754df040a4bf8f7cb7ae6ed4151830f9bb0f520/notebooks/process/download-covidtracking-data.ipynb + http://www.w3.org/ns/prov#hadRole: + - '@value': inputs/3 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/outputs/2 + '@type': + - http://www.w3.org/ns/prov#Generation + http://www.w3.org/ns/prov#activity: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1 + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#hadRole: + - '@value': outputs/2 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/outputs/4 + '@type': + - http://www.w3.org/ns/prov#Generation + http://www.w3.org/ns/prov#activity: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1 + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#hadRole: + - '@value': outputs/4 +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/tree/data/covidtracking/states-daily.json + '@type': + - http://www.w3.org/ns/prov#Generation + http://www.w3.org/ns/prov#activity: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf +- '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/tree/data/covidtracking/states-metadata.json + '@type': + - http://www.w3.org/ns/prov#Generation + http://www.w3.org/ns/prov#activity: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf +- '@id': https://renkulab.io/blob/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/data/covidtracking + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Collection + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': data/covidtracking@38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#atLocation: + - '@value': data/covidtracking + http://www.w3.org/ns/prov#hadMember: + - '@id': https://renkulab.io/blob/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/data/covidtracking/states-daily.json + - '@id': https://renkulab.io/blob/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/data/covidtracking/states-metadata.json + http://www.w3.org/ns/prov#qualifiedGeneration: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/outputs/2 +- '@id': https://renkulab.io/blob/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/data/covidtracking/states-daily.json + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': data/covidtracking/states-daily.json@38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#atLocation: + - '@value': data/covidtracking/states-daily.json + http://www.w3.org/ns/prov#qualifiedGeneration: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/tree/data/covidtracking/states-daily.json +- '@id': https://renkulab.io/blob/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/data/covidtracking/states-metadata.json + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': data/covidtracking/states-metadata.json@38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#atLocation: + - '@value': data/covidtracking/states-metadata.json + http://www.w3.org/ns/prov#qualifiedGeneration: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/tree/data/covidtracking/states-metadata.json +- '@id': https://renkulab.io/blob/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/runs/download-covidtracking-data.runs.ipynb + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': runs/download-covidtracking-data.runs.ipynb@38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf + http://www.w3.org/ns/prov#atLocation: + - '@value': runs/download-covidtracking-data.runs.ipynb + http://www.w3.org/ns/prov#qualifiedGeneration: + - '@id': https://localhost/activities/commit/38da2bb3503ad2bce0f573d3c6fd2a53ebd937bf/steps/step_1/outputs/4 +- '@id': https://renkulab.io/blob/ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658/data/covidtracking + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Collection + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': data/covidtracking@ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658 + http://www.w3.org/ns/prov#atLocation: + - '@value': data/covidtracking + http://www.w3.org/ns/prov#hadMember: + - '@id': https://renkulab.io/blob/ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658/data/covidtracking/states-daily.json + - '@id': https://renkulab.io/blob/ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658/data/covidtracking/states-metadata.json +- '@id': https://renkulab.io/blob/ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658/data/covidtracking/states-daily.json + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': data/covidtracking/states-daily.json@ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658 + http://www.w3.org/ns/prov#atLocation: + - '@value': data/covidtracking/states-daily.json +- '@id': https://renkulab.io/blob/ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658/data/covidtracking/states-metadata.json + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': data/covidtracking/states-metadata.json@ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658 + http://www.w3.org/ns/prov#atLocation: + - '@value': data/covidtracking/states-metadata.json +- '@id': https://renkulab.io/blob/ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658/runs/download-covidtracking-data.runs.ipynb + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': runs/download-covidtracking-data.runs.ipynb@ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658 + http://www.w3.org/ns/prov#atLocation: + - '@value': runs/download-covidtracking-data.runs.ipynb +- '@id': https://renkulab.io/blob/d754df040a4bf8f7cb7ae6ed4151830f9bb0f520/notebooks/process/download-covidtracking-data.ipynb + '@type': + - http://purl.org/wf4ever/wfprov#Artifact + - http://www.w3.org/ns/prov#Entity + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': notebooks/process/download-covidtracking-data.ipynb@d754df040a4bf8f7cb7ae6ed4151830f9bb0f520 + http://www.w3.org/ns/prov#atLocation: + - '@value': notebooks/process/download-covidtracking-data.ipynb +- '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + '@type': + - http://schema.org/Project + - http://www.w3.org/ns/prov#Location + http://schema.org/agent: + - '@value': pre-0.11.0 + http://schema.org/creator: + - '@id': mailto:cramakri@ethz.ch + http://schema.org/dateCreated: + - '@value': '2020-03-11T21:43:12.736000+00:00' + http://schema.org/name: + - '@value': covid-19-dashboard + http://schema.org/schemaVersion: + - '@value': '4' + https://swissdatasciencecenter.github.io/renku-ontology#automatedTemplateUpdate: + - '@value': false + https://swissdatasciencecenter.github.io/renku-ontology#immutableTemplateFiles: [] +- '@id': https://renkulab.io/runs/1f9e09b0e9e53a4c8cc5134a20ab47a18ed48f52 + '@type': + - http://www.w3.org/ns/prov#Entity + - http://www.w3.org/ns/prov#Plan + - https://swissdatasciencecenter.github.io/renku-ontology#Run + http://schema.org/isPartOf: + - '@id': https://renkulab.io/projects/covid-19/covid-19-public-data + http://schema.org/keywords: [] + http://www.w3.org/2000/01/rdf-schema#label: + - '@value': .renku/workflow/a17d560c41a54f5aa307ce5f3c5effe5_papermill.cwl@ccc37edffe6d9ca8ea4b8a229d1d20c42bc4b658 + http://www.w3.org/ns/prov#atLocation: + - '@value': .renku/workflow/a17d560c41a54f5aa307ce5f3c5effe5_papermill.cwl + https://swissdatasciencecenter.github.io/renku-ontology#command: + - '@value': papermill + https://swissdatasciencecenter.github.io/renku-ontology#hasArguments: + - '@id': https://renkulab.io/runs/1f9e09b0e9e53a4c8cc5134a20ab47a18ed48f52/arguments/1 + https://swissdatasciencecenter.github.io/renku-ontology#hasInputs: + - '@id': https://renkulab.io/runs/1f9e09b0e9e53a4c8cc5134a20ab47a18ed48f52/inputs/3 + https://swissdatasciencecenter.github.io/renku-ontology#hasOutputs: + - 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run: - arguments: [] - baseCommand: - - 'true' - class: CommandLineTool - cwlVersion: v1.0 - hints: [] - inputs: - filename: - default: states-metadata.json - streamable: false - type: string - input_directory: - streamable: false - type: Directory - outputs: - output_file: - outputBinding: - glob: $(inputs.filename) - streamable: false - type: File - permanentFailCodes: [] - requirements: - - &id001 - class: InlineJavascriptRequirement - - &id002 - class: InitialWorkDirRequirement - listing: $(inputs.input_directory.listing) - successCodes: [] - temporaryFailCodes: [] - step_3: - in: - filename: input_6 - input_directory: step_1/output_1 - out: - - output_file - run: - arguments: [] - baseCommand: - - 'true' - class: CommandLineTool - cwlVersion: v1.0 - hints: [] - inputs: - filename: - default: states-daily.json - streamable: false - type: string - input_directory: - streamable: false - type: Directory - outputs: - output_file: - outputBinding: - glob: $(inputs.filename) - streamable: false - type: File - permanentFailCodes: [] - requirements: - - *id001 - - *id002 - successCodes: [] - temporaryFailCodes: [] -- GitLab