Computational_tools_template

dca-template-config.json

@@ -84,6 +84,11 @@
             "display_name": "analysis_results_metadata_template",
             "schema_name": "AnalysisResultsMetadataTemplate",
             "type": "file"
+        },
+        {
+            "display_name": "computational_tools_template",
+            "schema_name": "ComputationalToolsTemplate",
+            "type": "file"
         }
     ],
     "service_version": "v23.1.1",

modules/ManifestColumn/program.csv

@@ -1,2 +1,2 @@
 Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
-program,,"ELITE,AD",,,True,ManifestColumn,,ManifestColumn,Sage Bionetworks,ManifestColumn,False,STRING,Sage Bionetworks,,study_folder_template
+program,,"ELITE,AD",,,True,ManifestColumn,,ManifestColumn,Sage Bionetworks,ManifestColumn,False,STRING,Sage Bionetworks,,"study_folder_template,computational_tools_template"

modules/ManifestColumn/resourceType.csv

@@ -1,2 +1,2 @@
 Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
-resourceType,The type of resource being stored and annotated,"experimentalData,metadata,tool,analysis,computationalNotebook, Not assigned",,,True,ManifestColumn,,ManifestColumn,Sage Bionetworks,ManifestColumn,True,STRING,Sage Bionetworks,,"study_folder_template, file_annotation_template"
+resourceType,The type of resource being stored and annotated,"experimentalData,metadata,tool,analysis,computationalNotebook,softwareTool,Not assigned",,,True,ManifestColumn,,ManifestColumn,Sage Bionetworks,ManifestColumn,True,STRING,Sage Bionetworks,,"study_folder_template, file_annotation_template, computational_tools_template"

modules/Unknown/contributor.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+contributor,,,,,TRUE,,,Unknown,Sage Bionetworks,Unknown,TRUE,STRING,Sage Bionetworks,,computational_tools_template

modules/Unknown/displayName.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+displayName,"Canonical tool name provided by the tool developer or service provider",,,,TRUE,,,Unknown,Sage Bionetworks,Unknown,FALSE,STRING,Sage Bionetworks,,computational_tools_template

modules/Unknown/documentation.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+documentation,,,,,TRUE,,,Unknown,Sage Bionetworks,Unknown,FALSE,STRING,Sage Bionetworks,,computational_tools_template

modules/Unknown/grants.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+grants,"Grant number associated with the tool's development. Multiple values permitted, comma separated.",,,,TRUE,,,Unknown,Sage Bionetworks,Unknown,TRUE,STRING,Sage Bionetworks,,computational_tools_template

modules/Unknown/institution.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+institution,,,,,FALSE,,,Unknown,Sage Bionetworks,Unknown,TRUE,STRING,Sage Bionetworks,,computational_tools_template

modules/Unknown/isFeatured.csv

@@ -1,2 +1,2 @@
 Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
-isFeatured,,,,,,,,,,Unknown,,BOOLEAN,,,study_folder_template
+isFeatured,,,,,,,,,,Unknown,,BOOLEAN,,,"study_folder_template,computational_tools_template"

modules/Unknown/project.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+project,"The ELITE project short name associated with the tool",,,,TRUE,,,Unknown,Sage Bionetworks,Unknown,FALSE,STRING,Sage Bionetworks,,computational_tools_template

modules/Unknown/summary.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+summary,"Textual description of the tool",,,,TRUE,,,Unknown,Sage Bionetworks,Unknown,FALSE,STRING,Sage Bionetworks,,computational_tools_template

modules/computational tools/softwareType.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+softwareType,,,,,TRUE,,,computational tools,Sage Bionetworks,computational tools,FALSE,STRING,Sage Bionetworks,,computational_tools_template

modules/computational tools/toolAccessibility.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolAccessibility,"Whether there are non-monetary restrictions on accessing an online service",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolCmd.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolCmd,"Relevant command, command-line fragment, or option for executing this function/running the tool in this mode",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolComputeRequirements.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolComputeRequirements,"Component dependency requirements for application. This includes runtime environments and shared libraries that are not included in the application distribution package, but required to run the application (examples: DirectX, Java or .NET runtime)",,,,FALSE,,,computational tools,schema.org,computational tools,,STRING,schema.org,,computational_tools_template

modules/computational tools/toolCost.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolCost,"Monetary cost of acquiring the software",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDateLastModified.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDateLastModified,"The date indicating when the tool's entry was most recently modified or updated, providing a timestamp of the latest changes made to the tool's information",,,,FALSE,,,computational tools,schema.org,computational tools,,STRING,schema.org,,computational_tools_template

modules/computational tools/toolDocumentationNote.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDocumentationNote,"Comment about the documentation",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDocumentationType.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDocumentationType,"Type of documentation that is linked to. Multiple values permitted, comma separated",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDocumentationUrl.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDocumentationUrl,"Link to documentation on the web for the tool",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDoi.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDoi,"The Digital Object Identifier (DOI) associated with the computational tool",,,,TRUE,,,computational tools,Sage Bionetworks,computational tools,FALSE,STRING,Sage Bionetworks,,computational_tools_template

modules/computational tools/toolDownloadNote.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDownloadNote,"Comment about the download",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDownloadType.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDownloadType,"The type of data, information, or system that is obtained when the link is resolved",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDownloadUrl.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDownloadUrl,"Link to download (or repo providing a download) for the software",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolDownloadVersion.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolDownloadVersion,"Version information (typically a version number) of the software applicable to this download",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolEntityName.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolEntityName,"Name of the entities that may be credited",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolEntityRole.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolEntityRole,"Role performed by entity that is credited e.g. Developer",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolEntityType.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolEntityType,"Types of entities that may be credited e.g. Person",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolFunctionNote.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolFunctionNote,"Concise comment about this function, if not apparent from the software description and EDAM annotations",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolHomepage.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolHomepage,"Homepage of the software, or some URL that best serves this purpose",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolInputData.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolInputData,"Type of primary input data. Multiple values permitted, comma separated",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolInputFormat.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolInputFormat,"Allowed format(s) of the input data. Multiple values permitted, comma separated",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolLanguage.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolLanguage,"Name of programming language the software source code was written in. Multiple values permitted, comma separated",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolLicense.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolLicense,"Software or data usage license. Multiple values permitted, comma separated",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolLinkNote.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolLinkNote,"Comment about the link",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolLinkType.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolLinkType,"The type of data, information or system that is obtained when the link is resolved. Multiple values permitted, comma separated",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolLinkUrl.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolLinkUrl,"A link of some relevance to the software (URL)",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolOperatingSystem.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolOperatingSystem,"The operating system supported by a downloadable software package. Multiple values permitted, comma separated",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolOperation.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolOperation,"The basic operation(s) performed by this software function. Multiple values permitted, comma separated",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolOutputData.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn\
+toolOutputData,"Type of primary output data. Multiple values permitted, comma separated",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolOutputFormat.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolOutputFormat,"Allowed format(s) of the output data. Multiple values permitted, comma separated",,,,TRUE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolPackageDependencies.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolPackageDependencies,"Specifies the software libraries, frameworks, or other components that a tool or package relies on for its proper functioning. This attribute helps users understand the prerequisites needed for installation and usage of the tool within a given computational environment",,,,FALSE,,,computational tools,CWL,computational tools,,STRING,CWL,,computational_tools_template

modules/computational tools/toolPackageDependenciesPresent.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolPackageDependenciesPresent,"Indicates whether the required package dependencies for tool are present",,,,TRUE,,,computational tools,CWL,computational tools,,BOOLEAN,CWL,,computational_tools_template

modules/computational tools/toolPubmedId.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolPubmedId,"The pubMed identifer associated with the development of the tool",,,,FALSE,,,computational tools,Sage Bionetworks,computational tools,,STRING,Sage Bionetworks,,computational_tools_template

modules/computational tools/toolReleaseDate.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolReleaseDate,"The release date of a product or product model. This can be used to distinguish the exact variant of a product",,,,TRUE,,,computational tools,schema.org,computational tools,,STRING,schema.org,,computational_tools_template

modules/computational tools/toolTopic.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolTopic,"General scientific domain the software serves, or other general category. Multiple values permitted, comma separated",,,,FALSE,,,computational tools,biotoolsschema,computational tools,,STRING,biotoolsschema,,computational_tools_template

modules/computational tools/toolType.csv

@@ -0,0 +1,2 @@
+Attribute,Description,Valid Values,DependsOn,DependsOn Component,Required,Parent,Validation Rules,Properties,Source,module,multivalue,columnType,Ontology,Notes,UsedIn
+toolType,"A type of application software: a discrete software entity can have more than one type. Multiple values permitted, comma separated",,,,TRUE,,,computational tools,Sage Bionetworks,computational tools,TRUE,STRING,Sage Bionetworks,,computational_tools_template