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fmri_provenance.jsonld
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{
"@context" : [ {
"schema" : "https://schema.org/",
"xsd" : "http://www.w3.org/2001/XMLSchema#",
"provone" : "http://purl.dataone.org/provone/2015/01/15/ontology#",
"dcterms" : "http://purl.org/dc/terms/",
"prov" : "http://www.w3.org/ns/prov#",
"foaf" : "http://xmlns.com/foaf/0.1/",
"fmri" : "http://example.com/",
"scoro" : "http://purl.org/spar/scoro/"
}, "http://openprovenance.org/prov.jsonld" ],
"@graph" : [ {
"@type" : "provone:Program",
"@id" : "fmri:align-warp",
"schema:citation" : [ {
"@value" : "http://air.bmap.ucla.edu/AIR5/AIRrefs.html",
"@type" : "schema:URL"
} ],
"schema:softwareVersion" : [ {
"@value" : "5.3.0",
"@type" : "schema:Text"
} ],
"schema:applicationSuite" : [ {
"@value" : "AIR",
"@type" : "schema:Text"
} ],
"schema:downloadUrl" : [ {
"@value" : "http://air.bmap.ucla.edu/AIR5/index.html",
"@type" : "schema:URL"
} ],
"schema:comment" : [ {
"@value" : "AIR Suite needs registering account. No-cost and custom license.",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "align_warp"
} ]
}, {
"@type" : "provone:Program",
"@id" : "fmri:reslice",
"schema:citation" : [ {
"@value" : "http://air.bmap.ucla.edu/AIR5/AIRrefs.html",
"@type" : "schema:URL"
} ],
"schema:softwareVersion" : [ {
"@value" : "5.3.0",
"@type" : "schema:Text"
} ],
"schema:applicationSuite" : [ {
"@value" : "AIR",
"@type" : "schema:Text"
} ],
"schema:downloadUrl" : [ {
"@value" : "http://air.bmap.ucla.edu/AIR5/index.html",
"@type" : "schema:URL"
} ],
"schema:comment" : [ {
"@value" : "AIR Suite needs registering account. No-cost and custom license.",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "reslice"
} ]
}, {
"@type" : "provone:Program",
"@id" : "fmri:softmean",
"schema:citation" : [ {
"@value" : "http://air.bmap.ucla.edu/AIR5/AIRrefs.html",
"@type" : "schema:URL"
} ],
"schema:softwareVersion" : [ {
"@value" : "5.3.0",
"@type" : "schema:Text"
} ],
"schema:applicationSuite" : [ {
"@value" : "AIR",
"@type" : "schema:Text"
} ],
"schema:downloadUrl" : [ {
"@value" : "http://air.bmap.ucla.edu/AIR5/index.html",
"@type" : "schema:URL"
} ],
"schema:comment" : [ {
"@value" : "AIR Suite needs registering account. No-cost and custom license.",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "softmean"
} ]
}, {
"@type" : "provone:Program",
"@id" : "fmri:slicer",
"schema:citation" : [ {
"@value" : "https://fsl.fmrib.ox.ac.uk/fsl/fslwiki",
"@type" : "schema:URL"
} ],
"schema:softwareVersion" : [ {
"@value" : "3.5.3",
"@type" : "schema:Text"
} ],
"schema:applicationSuite" : [ {
"@value" : "FSL",
"@type" : "schema:Text"
} ],
"schema:downloadUrl" : [ {
"@value" : "https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FslInstallation",
"@type" : "schema:URL"
} ],
"schema:comment" : [ {
"@value" : "FSL Suite needs registering account before downloading. No-cost and custom license.",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "slicer"
} ]
}, {
"@type" : "provone:Program",
"@id" : "fmri:convert",
"schema:citation" : [ {
"@value" : "ImageMagick Studio LLC. (2023). ImageMagick. Retrieved from https://imagemagick.org",
"@type" : "schema:URL"
} ],
"schema:softwareVersion" : [ {
"@value" : "6.9.10-23 Q16 x86_64 20190101",
"@type" : "schema:Text"
} ],
"schema:applicationSuite" : [ {
"@value" : "ImageMagick",
"@type" : "schema:Text"
} ],
"schema:downloadUrl" : [ {
"@value" : "https://legacy.imagemagick.org/script/download.php",
"@type" : "schema:URL"
} ],
"prov:label" : [ {
"@value" : "convert"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:align-warp-inPort1",
"schema:description" : [ {
"@value" : "NIfTI files: img part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Anatomy Image"
} ],
"schema:encodingFormat" : [ {
"@value" : "testFormat2",
"@type" : "schema:Text"
}, {
"@value" : "testFormat1",
"@type" : "schema:Text"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:align-warp-inPort2",
"schema:description" : [ {
"@value" : "NIfTI files: hdr part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Anatomy Header"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:align-warp-inPort3",
"schema:description" : [ {
"@value" : "NIfTI files: img part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Reference Image"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:align-warp-inPort4",
"schema:description" : [ {
"@value" : "NIfTI files: hdr part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Reference Header"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:align-warp-inPort5",
"prov:label" : [ {
"@value" : "-m"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:align-warp-out",
"prov:label" : [ {
"@value" : "warp_params"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:reslice-in",
"schema:description" : [ {
"@value" : "Input port for warp parameters",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Warp parameters input"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:reslice-out-img",
"schema:description" : [ {
"@value" : "Output for resliced NIfTI files: img part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Resliced img part"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:reslice-out-hdr",
"schema:description" : [ {
"@value" : "Output for resliced NIfTI files: hdr part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Resliced hdr part"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:softmean-in-img",
"schema:description" : [ {
"@value" : "Input port for NIfTI files: img part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Softmean img input"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:softmean-in-hdr",
"schema:description" : [ {
"@value" : "Input port for NIfTI files: hdr part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Softmean hdr input"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:softmean-out-img",
"schema:description" : [ {
"@value" : "Output port for NIfTI files: img part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Softmean img output"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:softmean-out-hdr",
"schema:description" : [ {
"@value" : "Output port for NIfTI files: hdr part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Softmean hdr output"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:slicer-in-img",
"schema:description" : [ {
"@value" : "Input port for NIfTI files: img part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Slicer img input"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:slicer-in-hdr",
"schema:description" : [ {
"@value" : "Input port for NIfTI files: hdr part",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Slicer hdr input"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:slicer-out",
"schema:description" : [ {
"@value" : "Slicer output in pgm format",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Slicer output"
} ],
"schema:encodingFormat" : [ {
"@value" : "image/x-portable-greymap",
"@type" : "schema:Text"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:convert-in",
"schema:description" : [ {
"@value" : "Convert input port",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Convert input"
} ],
"schema:encodingFormat" : [ {
"@value" : "image/x-portable-greymap",
"@type" : "schema:Text"
} ]
}, {
"@type" : "provone:Port",
"@id" : "fmri:convert-out",
"schema:description" : [ {
"@value" : "Convert output port",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "Coinvert output"
} ],
"schema:encodingFormat" : [ {
"@value" : "image/gif",
"@type" : "schema:Text"
} ]
}, {
"@type" : "provone:Channel",
"@id" : "fmri:ch-alignWarpOut-resliceIn",
"prov:label" : [ {
"@value" : "Channel between align_warp output and reslice input."
} ]
}, {
"@type" : "provone:Channel",
"@id" : "fmri:ch-resliceOutImg-softmeanInImg",
"prov:label" : [ {
"@value" : "Channel between reslice output and softmean input for NIfTI files: img part"
} ]
}, {
"@type" : "provone:Channel",
"@id" : "fmri:ch-resliceOutHdr-softmeanInHdr",
"prov:label" : [ {
"@value" : "Channel between reslice output and softmean input for NIfTI files: hdr part"
} ]
}, {
"@type" : "provone:Channel",
"@id" : "fmri:ch-softmeanOutImg-slicerInImg",
"prov:label" : [ {
"@value" : "Channel between softmean output and slicer input for NIfTI files: img part"
} ]
}, {
"@type" : "provone:Channel",
"@id" : "fmri:ch-softmeanOutHdr-slicerInHdr",
"prov:label" : [ {
"@value" : "Channel between softmean output and slicer input for NIfTI files: hdr part"
} ]
}, {
"@type" : "provone:Channel",
"@id" : "fmri:ch-slicerOut-ConvertIn",
"prov:label" : [ {
"@value" : "Channel between slicer output and convert input."
} ]
}, {
"@type" : "provone:Controller",
"@id" : "fmri:snakemake",
"schema:citation" : [ {
"@value" : "https://snakemake.readthedocs.io/en/stable/project_info/citations.html",
"@type" : "schema:URL"
} ],
"schema:softwareVersion" : [ {
"@value" : "5.19.3",
"@type" : "schema:Text"
} ],
"schema:downloadUrl" : [ {
"@value" : "https://snakemake.readthedocs.io/en/stable/getting_started/installation.html",
"@type" : "schema:URL"
} ],
"prov:label" : [ {
"@value" : "snakemake"
} ]
}, {
"@type" : "provone:Workflow",
"@id" : "fmri:fmri-workflow",
"schema:downloadUrl" : [ {
"@value" : "https://github.com/fbartusch/fMRI_snakemake",
"@type" : "schema:URL"
} ],
"schema:comment" : [ {
"@value" : "Implemenation of fMRI workflow used in the Provenance Challenges with Snakemake.",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "fMRI workflow"
} ]
}, {
"@type" : "provone:Workflow",
"@id" : "fmri:original-fmri-workflow",
"schema:downloadUrl" : [ {
"@value" : "https://openprovenance.org/provenance-challenge/FirstProvenanceChallenge.html",
"@type" : "schema:URL"
} ],
"schema:comment" : [ {
"@value" : "fMRI workflow used in the Provenance Challenges",
"@type" : "schema:Text"
} ],
"prov:label" : [ {
"@value" : "fMRI workflow used in the Provenance Challenges"
} ]
}, {
"@type" : "provone:Execution",
"@id" : "fmri:wf-execution",
"startTime" : "2023-08-21T05:44:05.105+02:00",
"endTime" : "2023-08-21T05:44:10.821+02:00",
"prov:label" : [ {
"@value" : "workflow_execution"
} ]
}, {
"@type" : "provone:Execution",
"@id" : "fmri:align-warp-exe1",
"startTime" : "2023-08-21T05:44:05.105+02:00",
"endTime" : "2023-08-21T05:44:05.361+02:00",
"prov:label" : [ {
"@value" : "align_warp_execution_1"
} ]
}, {
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"entity" : [ "fmri:anatomy-img1", "fmri:anatomy-hdr1", "fmri:anatomy-img2", "fmri:anatomy-hdr2", "fmri:anatomy-img3", "fmri:anatomy-hdr3", "fmri:anatomy-img4", "fmri:anatomy-hdr4", "fmri:reference-img", "fmri:reference-hdr" ]
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:align-warp",
"provone:port" : "fmri:align-warp-inPort1"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:align-warp",
"provone:port" : "fmri:align-warp-inPort2"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:align-warp",
"provone:port" : "fmri:align-warp-inPort3"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:align-warp",
"provone:port" : "fmri:align-warp-inPort4"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:align-warp",
"provone:port" : "fmri:align-warp-inPort5"
}, {
"@type" : "provone:HasOutPort",
"provone:program" : "fmri:align-warp",
"provone:port" : "fmri:align-warp-out"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:reslice",
"provone:port" : "fmri:reslice-in"
}, {
"@type" : "provone:HasOutPort",
"provone:program" : "fmri:reslice",
"provone:port" : "fmri:reslice-out-img"
}, {
"@type" : "provone:HasOutPort",
"provone:program" : "fmri:reslice",
"provone:port" : "fmri:reslice-out-hdr"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:softmean",
"provone:port" : "fmri:softmean-in-img"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:softmean",
"provone:port" : "fmri:softmean-in-hdr"
}, {
"@type" : "provone:HasOutPort",
"provone:program" : "fmri:softmean",
"provone:port" : "fmri:softmean-out-img"
}, {
"@type" : "provone:HasOutPort",
"provone:program" : "fmri:softmean",
"provone:port" : "fmri:softmean-out-hdr"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:slicer",
"provone:port" : "fmri:slicer-in-img"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:slicer",
"provone:port" : "fmri:slicer-in-hdr"
}, {
"@type" : "provone:HasOutPort",
"provone:program" : "fmri:slicer",
"provone:port" : "fmri:slicer-out"
}, {
"@type" : "provone:HasInPort",
"provone:program" : "fmri:convert",
"provone:port" : "fmri:convert-in"
}, {