Add modify subcommand for editing dicom tags

bin/dcmjs.js

@@ -1,6 +1,6 @@
 #!/usr/bin/env node
 import { Command } from 'commander';
-import { readDicom, instanceDicom, dumpDicom } from '../src/index.js';
+import { readDicom, writeDicom, instanceDicom, dumpDicom, modifyDicom } from '../src/index.js';
 
 const program = new Command();
 
@@ -28,4 +28,20 @@ program.command('instance')
   })
 
 
-program.parse();
+function assignment(value, dummyPrevious) {
+  return value.split('=');
+}
+
+program.command('modify')
+  .description('Change values in the dicom header')
+  .argument('<part10in>', 'part 10 input file path')
+  .option('-l, --logLevel <level>', 'logging level, TRACE, DEBUG, INFO, WARN, ERROR, default: WARN')
+  .option('-o, --out <part10out>', 'part 10 output file path')
+  .requiredOption('-r, --replace <tag>=<value>', 'Replace or add tag value', assignment)
+  .action(async (fileName, options) => {
+    let dicomDict = readDicom(fileName);
+    dicomDict = modifyDicom(dicomDict, options);
+    writeDicom(options.out, dicomDict);
+  })
+
+program.parse();

package.json

@@ -50,7 +50,7 @@
   "dependencies": {
     "commander": "^12.1.0",
     "config-point": ">=0.5.1",
-    "dcmjs": "^0.29.5",
+    "dcmjs": ">0.29.5",
     "dcmjs-dimse": "0.1.27",
     "dicomweb-client": "0.8.4"
   },

src/index.js

@@ -11,6 +11,11 @@ export function readDicom(fileName) {
   return dicomDict;
 }
 
+export function writeDicom(fileName, dicomDict) {
+  const writeBuffer = dicomDict.write();
+  fs.writeFileSync(fileName, Buffer.from(writeBuffer));
+}
+
 export function dumpDicom(dicomDict, options = {}) {
   if (dicomDict.meta) {
     console.log("Metadata");
@@ -90,3 +95,15 @@ export function instanceDicom(dicomDict, options = {}) {
   const result = pretty ? JSON.stringify(dicomDict.dict, null, 2) : JSON.stringify(dicomDict.dict);
   console.log('', result);
 }
+
+export function modifyDicom(dicomDict, options = {}) {
+    if (options.logLevel) {
+        dcmjs.log.setLevel(dcmjs.log.levels[options.logLevel]);
+    }
+    const { replace } = options;
+    const [tag, value] = replace;
+    const naturalData = DicomMetaDictionary.naturalizeDataset(dicomDict.dict);
+    naturalData[tag] = value;
+    dicomDict.dict = DicomMetaDictionary.denaturalizeDataset(naturalData);
+    return dicomDict;
+}

testscripts/walk.py

@@ -0,0 +1,24 @@
+import glob
+import os
+import pydicom
+import subprocess
+import sys
+
+if len(sys.argv) < 3:
+    print("Usage: python walk.py <inputDirectory> <outputDirectory>")
+    exit(-1)
+
+inputDirectory = sys.argv[1]
+outputDirectory = sys.argv[2]
+
+os.makedirs(outputDirectory, exist_ok=True)
+
+for filePath in glob.glob(f'{inputDirectory}/**/*', recursive=True):
+    print(filePath)
+    fileName = os.path.split(filePath)[-1]
+    beforeDataset = pydicom.read_file(filePath)
+    print(f"Age before: {beforeDataset.PatientAge}")
+    outputFilePath = f"{outputDirectory}/{fileName}"
+    result = subprocess.Popen(f"dcmjs modify {filePath} --logLevel ERROR --out {outputFilePath} --replace PatientAge=021Y".split()).communicate()
+    afterDataset = pydicom.read_file(outputFilePath)
+    print(f"Age before: {afterDataset.PatientAge}")