First attempt afib1

recipes/afib1/OpenRecon.dockerfile

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+FROM stebo85/bet4
+LABEL "com.siemens-healthineers.magneticresonance.openrecon.metadata:1.1.0"="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"

recipes/afib1/OpenReconLabel.json

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+{
+  "general": {
+    "name": { "en": "afib1" },
+    "version": "1.0.0",
+    "vendor": "neurodesk",
+    "information": { "en": "afib1 pipeline." },
+    "id": "afib1",
+    "regulatory_information": {
+      "device_trade_name":"afib1",
+      "production_identifier":"1.0.0",
+      "manufacturer_address":"Erlangen, Germany",
+      "made_in":"DE",
+      "manufacture_date":"2023/02/14",
+      "material_number":"afib1_2.0.0",
+      "gtin":"00860000171212",
+      "udi":"(01)00860000171212(21)1.3.0",
+      "safety_advices":"",
+      "special_operating_instructions":"Open Recon afib1 pipeline",
+      "additional_relevant_information":""
+    }
+  },
+  "reconstruction": {
+    "transfer_protocol": {
+      "protocol": "ISMRMRD",
+      "version": "1.4.1"
+    },
+    "port": 9002,
+    "emitter": "image",
+    "injector": "image",
+    "can_process_adjustment_data": false,
+    "can_use_gpu": false,
+    "min_count_required_gpus": 0,
+    "min_required_gpu_memory": 2048,
+    "min_required_memory": 4096,
+    "min_count_required_cpu_cores": 1,
+    "content_qualification_type": "PRODUCT"
+  },
+  "parameters": [
+    {
+      "id": "config",
+      "label": { "en": "config" },
+      "type": "choice",
+      "values": [
+        {
+          "id": "invertcontrast",
+          "name": { "en": "invertcontrast" }
+        },
+        {
+          "id": "rgb",
+          "name": { "en": "rgb" }
+        },
+        {
+          "id": "simplefft",
+          "name": { "en": "simplefft" }
+        }
+      ],
+      "default": "invertcontrast",
+      "information": { "en": "Define the config to be executed by MRD server" }
+    },
+    {
+      "id": "customconfig",
+      "label": { "en":"Custom Config" },
+      "type": "string",
+      "default": "",
+      "information": { "en": "Custom config file not listed in drop-down menu" }
+    },
+    {
+      "id": "options",
+      "label": { "en": "options" },
+      "type": "choice",
+      "values": [
+        {
+          "id": "none",
+          "name": { "en": "none" }
+        },
+        {
+          "id": "roi",
+          "name": { "en": "roi" }
+        },
+        {
+          "id": "colormap",
+          "name": { "en": "colormap" }
+        }
+      ],
+      "default": "none",
+      "information": { "en": "Define additional options" }
+    },
+    {
+      "id": "double",
+      "label": { "en": "double" },
+      "type": "double",
+      "minimum": 0,
+      "maximum": 100,
+      "default": 1.0,
+      "information": { "en": "A double parameter" }
+    },
+    {
+      "id": "freetext",
+      "label": { "en":"freetext" },
+      "type": "string",
+      "default": "",
+      "information": { "en": "Free text data" }
+    }
+  ]
+}

recipes/afib1/README.md

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+Readme will be converted to PDF

recipes/afib1/build.py

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+
+
+import json
+import jsonschema
+import base64
+import os
+
+# Validate JSON file against OpenRecon schema and write Dockerfile
+jsonFilePath    = 'OpenReconLabel.json'
+schemaFilePath  = '../OpenReconSchema_1.1.0.json'
+dockerfilePath  = 'OpenRecon.dockerfile'
+baseDockerImage = 'kpinecbs/afib1'
+
+def validateJson(jsonFilePath, schemaFilePath):
+    try:
+        # Load the JSON data from the file
+        with open(jsonFilePath, 'r') as jsonFile:
+            jsonData = json.load(jsonFile)
+
+        # Load the JSON schema from the file
+        with open(schemaFilePath, 'r') as schemaFile:
+            schemaData = json.load(schemaFile)
+
+        # Create a JSON Schema validator
+        validator = jsonschema.Draft7Validator(schemaData)
+
+        # Validate the JSON data against the schema
+        errors = list(validator.iter_errors(jsonData))
+
+        if not errors:
+            print("JSON is valid against the schema.")
+            return True
+        else:
+            print("JSON is not valid against the schema. Errors:")
+            for error in errors:
+                print(error)
+            return False
+
+    except Exception as e:
+        print(f"An error occurred: {e}")
+
+# Write Dockerfile
+if validateJson(jsonFilePath, schemaFilePath):
+    with open(jsonFilePath, 'r') as jsonFile:
+        jsonData = json.load(jsonFile)
+    jsonString = json.dumps(jsonData, indent=2)
+    encodedJson = base64.b64encode(jsonString.encode('utf-8')).decode('utf-8')
+
+    with open(dockerfilePath, 'w') as file:
+        labelName = 'com.siemens-healthineers.magneticresonance.openrecon.metadata:1.1.0'
+        labelStr = 'LABEL "' + labelName + '"="' + encodedJson + '"'
+
+        file.writelines('FROM ' + baseDockerImage)
+        file.writelines('\n' + labelStr)
+    print('Wrote Dockerfile:', os.path.abspath(dockerfilePath))
+else:
+    raise Exception('Not writing Dockerfile because JSON is not valid')
+
+# Build Docker image, save to a .tar file, and package into a .zip file for OpenRecon
+# The documentation must be a valid PDF!
+# README.pdf is autogenerated from README.md, but if it should be overwritten with a dedicated docs.pdf thats's possible
+if os.path.isfile('docs.pdf'):
+    docsFile = 'docs.pdf'
+else:
+    docsFile = 'README.pdf'
+
+# Filename must match information contained in the JSON
+version = jsonData['general']['version']
+vendor  = jsonData['general']['vendor']
+name    = jsonData['general']['name']['en']
+
+# Check documentation file exists
+if not os.path.isfile(docsFile):
+    raise Exception('Could not find documentation file: ' + docsFile)
+
+# Check 7-zip exists
+zipExe = '/usr/bin/7z'
+
+if not os.path.isfile(zipExe):
+    raise Exception('Could not find 7-Zip executable: ' + zipExe + '\nPlease download and install 7-Zip')
+
+dockerImagename = ('OpenRecon_' + vendor + '_' + name + ':' +  'V' + version).lower()
+baseFilename    =  'OpenRecon_' + vendor + '_' + name +       '_V' + version
+
+import subprocess
+import shutil
+
+try:
+    # Build Docker image docker buildx build --platform linux/amd64
+    print('Attempting to create Docker image with tag:', dockerImagename, '...')
+    output = subprocess.check_output(['docker', 'buildx', 'build', '--platform', 'linux/amd64', '--no-cache', '--progress=plain', '-t', dockerImagename, '-f', dockerfilePath, './'], stderr=subprocess.STDOUT)
+    print('Docker build output:\n' + output.decode('utf-8'))
+
+    # Save Docker image to a .tar file
+    print('Saving Docker image file with name:', baseFilename + '.tar', '...')
+    output = subprocess.check_output(['docker', 'save', '-o', baseFilename + '.tar', dockerImagename], stderr=subprocess.STDOUT)
+    print('Docker save output:\n' + output.decode('utf-8'))
+
+    # Copy documentation file with appropriate filename
+    print('Copying documentation to file with name:', baseFilename + '.pdf', '...')
+    try:
+        shutil.copy(docsFile, baseFilename + '.pdf')
+        print(f'File copied from {docsFile} to {baseFilename}.pdf')
+    except IOError as e:
+        print(f'An error occurred: {e}')
+
+    # Zip into a package
+    print('Packaging files into zip with name:', baseFilename + '.zip', '...')
+    output = subprocess.check_output([zipExe, 'a', '-tzip', '-mm=Deflate', baseFilename + '.zip', baseFilename + '.tar', baseFilename + '.pdf'], stderr=subprocess.STDOUT)
+    print('Zip packaging output:\n' + output.decode('utf-8'))
+
+except subprocess.CalledProcessError as e:
+    # If the command returns a non-zero exit status, it will raise a CalledProcessError
+    print('Command failed with return code:', e.returncode)
+    print('Error output:\n' + e.output.decode('utf-8'))
+