manifest.json

{
	"name": "heatmap",
	"label": "ct-heatmap: plot z-scores of cortical thickness relative to normative data.",
	"description": "Produces cortical thickness maps z-normalized to normative thickness data, and compiles these data into an html report with a threshold-adjustable surface rendering and a statistical map overlaid on an interactive volume slice viewer (powered by Papaya).",
	"version": "0.1.2_0.4.1",
	"inputs": {
			"api_key": {
				"base": "api-key"
			},
		"CorticalThicknessImage": {
			"base": "file",
			"description": "Patient's cortical thickness image."
		}
	},
	"config": {
		"zthresholds": {
			"default": "1.75 2.5 4",
			"description": "space-separated list of z-score thresholds",
			"type": "string"
		},
		"maxz": {
			"default": 6,
			"description": "maximum z-score to display",
			"type": "number"
		}
	},
	"command": "python /flywheel/v0/run.py",
	 "environment": {
        "FLYWHEEL": "/flywheel/v0",
        "FSLDIR": "/usr/share/fsl",
        "FSLMULTIFILEQUIT": "TRUE",
        "FSLOUTPUTTYPE": "NIFTI_GZ",
        "PYTHONNOUSERSITE": "1",
        "PYTHON_PIP_VERSION": "20.0.2",
        "PYTHON_VERSION": "3.7.1",
        "PATH": "/usr/local/miniconda/bin:/usr/share/ants:/usr/share/workbench/bin_linux64:/opt/convert3d-nightly/bin:/usr/share/fsl/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin"
       },
	"author": "Katherine Xu and Will Tackett",
	"maintainer": "Will Tackett",
	"license": "BSD-3-Clause",
	"source": "https://github.com/willtack/heat-map",
	"url": "https://hub.docker.com/r/willtack/heatmap/tags",
	"custom": {
		"gear-builder": {
			"category": "analysis",
			"image": "willtack/heatmap:0.4.1"
		},
		"flywheel": {
			"suite": "BrainScienceCenter"
		}
	}
}