Mercurial > hg > orthanc-tests
view Plugins/WebDav/Run.py @ 436:9f87d5b2b382
added test_dicom_seg
author | Sebastien Jodogne <s.jodogne@gmail.com> |
---|---|
date | Thu, 25 Nov 2021 15:26:37 +0100 |
parents | 08fac54c8555 |
children | e769bcf2b94f |
line wrap: on
line source
#!/usr/bin/python # Orthanc - A Lightweight, RESTful DICOM Store # Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics # Department, University Hospital of Liege, Belgium # Copyright (C) 2017-2021 Osimis S.A., Belgium # # This program is free software: you can redistribute it and/or # modify it under the terms of the GNU General Public License as # published by the Free Software Foundation, either version 3 of the # License, or (at your option) any later version. # # This program is distributed in the hope that it will be useful, but # WITHOUT ANY WARRANTY; without even the implied warranty of # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU # General Public License for more details. # # You should have received a copy of the GNU General Public License # along with this program. If not, see <http://www.gnu.org/licenses/>. import argparse import easywebdav import io import os import pprint import re import sys import unittest # https://stackoverflow.com/a/49336105/881731 if ((3, 0) <= sys.version_info <= (3, 9)): from urllib.parse import unquote elif ((2, 0) <= sys.version_info <= (2, 9)): from urlparse import unquote sys.path.append(os.path.join(os.path.dirname(__file__), '..', '..', 'Tests')) from Toolbox import * ## ## Parse the command-line arguments ## parser = argparse.ArgumentParser(description = 'Run the integration tests for the WebDAV server.') parser.add_argument('--server', default = 'localhost', help = 'Address of the Orthanc server to test') parser.add_argument('--rest', type = int, default = 8042, help = 'Port to the REST API') parser.add_argument('--username', default = 'alice', help = 'Username to the REST API') parser.add_argument('--password', default = 'orthanctest', help = 'Password to the REST API') parser.add_argument('--force', help = 'Do not warn the user', action = 'store_true') parser.add_argument('options', metavar = 'N', nargs = '*', help='Arguments to Python unittest') args = parser.parse_args() ## ## Configure the testing context ## if not args.force: print(""" WARNING: This test will remove all the content of your Orthanc instance running on %s! Are you sure ["yes" to go on]?""" % args.server) if sys.stdin.readline().strip() != 'yes': print('Aborting...') exit(0) ORTHANC = DefineOrthanc(server = args.server, username = args.username, password = args.password, restPort = args.rest) WEBDAV = easywebdav.connect(args.server, port = args.rest, username = args.username, password = args.password) ## ## The tests ## def ListFiles(path, recursive): result = [ ] for i in WEBDAV.ls(path): if i.name == path: pass elif i.contenttype == '': if recursive: result += ListFiles(i.name + '/', True) else: result.append(i.name) return result def GetFileInfo(path): for i in WEBDAV.ls(path[0 : path.rfind('/')]): if i.name == path: return i raise Exception('Cannot find: %s' % path) def DownloadFile(path): with tempfile.NamedTemporaryFile(delete = False) as f: f.close() WEBDAV.download(path, f.name) with open(f.name, 'rb') as g: result = g.read() os.unlink(f.name) return result class Orthanc(unittest.TestCase): def setUp(self): if (sys.version_info >= (3, 0)): # Remove annoying warnings about unclosed socket in Python 3 import warnings warnings.simplefilter("ignore", ResourceWarning) DropOrthanc(ORTHANC) def test_root(self): self.assertEqual(6, len(WEBDAV.ls('/webdav/'))) for i in WEBDAV.ls('/webdav/'): self.assertTrue(i.name in [ '/webdav/', '/webdav/by-dates', '/webdav/by-patients', '/webdav/by-studies', '/webdav/by-uids', '/webdav/uploads' ]) self.assertEqual(0, i.size) self.assertEqual('', i.contenttype) patients = WEBDAV.ls('/webdav/by-patients/') self.assertEqual(1, len(patients)) self.assertEqual(patients[0].name, '/webdav/by-patients/') self.assertEqual(0, patients[0].size) self.assertEqual('', patients[0].contenttype) self.assertRaises(Exception, lambda: WEBDAV.delete('/webdav/nope')) self.assertRaises(Exception, lambda: WEBDAV.delete('/webdav/by-uids')) def test_upload(self): self.assertEqual(0, len(ListFiles('/webdav/uploads/', True))) uploads = WEBDAV.ls('/webdav/uploads/') for i in uploads: self.assertEqual(i.contenttype, '') # Only folders are allowed self.assertEqual(0, len(DoGet(ORTHANC, '/studies'))) WEBDAV.upload(GetDatabasePath('DummyCT.dcm'), '/webdav/uploads/DummyCT.dcm') while len(ListFiles('/webdav/uploads/', True)) > 1: time.sleep(0.1) time.sleep(0.1) # Give some more delay to be sure that the store has succeeded (necessary for Wine) instances = DoGet(ORTHANC, '/instances?expand') self.assertEqual(1, len(instances)) self.assertEqual('1.2.840.113619.2.176.2025.1499492.7040.1171286242.109', instances[0]['MainDicomTags']['SOPInstanceUID']) def test_upload_folders(self): self.assertEqual(0, len(ListFiles('/webdav/uploads/', True))) self.assertEqual(0, len(DoGet(ORTHANC, '/studies'))) try: WEBDAV.mkdir('/webdav/uploads/a') except: pass try: WEBDAV.mkdir('/webdav/uploads/b') except: pass WEBDAV.upload(GetDatabasePath('DummyCT.dcm'), '/webdav/uploads/a/DummyCT.dcm') WEBDAV.upload(GetDatabasePath('ColorTestMalaterre.dcm'), '/webdav/uploads/b/ColorTestMalaterre.dcm') while len(ListFiles('/webdav/uploads/', True)) > 1: time.sleep(0.1) time.sleep(0.1) # Give some more delay to be sure that the store has succeeded (necessary for Wine) self.assertEqual(2, len(DoGet(ORTHANC, '/instances'))) def test_by_uids(self): self.assertEqual(1, len(WEBDAV.ls('/webdav/by-uids/'))) self.assertEqual(0, len(ListFiles('/webdav/by-uids/', True))) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) i = UploadInstance(ORTHANC, 'DummyCT.dcm')['ID'] tags = DoGet(ORTHANC, '/instances/%s/tags?simplify' % i) studyUid = tags['StudyInstanceUID'] seriesUid = tags['SeriesInstanceUID'] sopUid = tags['SOPInstanceUID'] self.assertEqual(0, len(ListFiles('/webdav/by-uids/', False))) self.assertEqual(1, len(ListFiles('/webdav/by-uids/%s/' % studyUid, False))) self.assertEqual(2, len(ListFiles('/webdav/by-uids/%s/%s/' % (studyUid, seriesUid), False))) content = ListFiles('/webdav/by-uids/', True) self.assertEqual(3, len(content)) self.assertTrue(('/webdav/by-uids/%s/study.json' % studyUid) in content) self.assertTrue(('/webdav/by-uids/%s/%s/series.json' % (studyUid, seriesUid)) in content) self.assertTrue(('/webdav/by-uids/%s/%s/%s.dcm' % (studyUid, seriesUid, sopUid)) in content) # Deleting the virtual files "study|series.json" has no # effect, but is needed for recursive DELETE in some file explorers WEBDAV.delete('/webdav/by-uids/%s/study.json' % studyUid) WEBDAV.delete('/webdav/by-uids/%s/%s/series.json' % (studyUid, seriesUid)) info = GetFileInfo('/webdav/by-uids/%s/study.json' % studyUid) self.assertEqual(info.contenttype, 'application/json') info = GetFileInfo('/webdav/by-uids/%s/%s/series.json' % (studyUid, seriesUid)) self.assertEqual(info.contenttype, 'application/json') info = GetFileInfo('/webdav/by-uids/%s/%s/%s.dcm' % (studyUid, seriesUid, sopUid)) self.assertEqual(info.contenttype, 'application/dicom') self.assertEqual(info.size, os.stat(GetDatabasePath('DummyCT.dcm')).st_size) a = DownloadFile('/webdav/by-uids/%s/%s/%s.dcm' % (studyUid, seriesUid, sopUid)) self.assertEqual(len(a), info.size) with open(GetDatabasePath('DummyCT.dcm'), 'rb') as f: self.assertEqual(a, f.read()) self.assertEqual(studyUid, json.loads(DownloadFile('/webdav/by-uids/%s/study.json' % studyUid)) ['MainDicomTags']['StudyInstanceUID']) self.assertEqual(seriesUid, json.loads(DownloadFile('/webdav/by-uids/%s/%s/series.json' % (studyUid, seriesUid))) ['MainDicomTags']['SeriesInstanceUID']) self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) WEBDAV.delete('/webdav/by-uids/%s/%s/%s.dcm' % (studyUid, seriesUid, sopUid)) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) self.assertEqual(0, len(ListFiles('/webdav/by-uids/', True))) def test_by_patients(self): self.assertEqual(0, len(ListFiles('/webdav/by-dates/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-patients/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-studies/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-uids/', True))) self.assertEqual(1, len(WEBDAV.ls('/webdav/by-patients/'))) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) i = UploadInstance(ORTHANC, 'DummyCT.dcm')['ID'] tags = DoGet(ORTHANC, '/instances/%s/tags?simplify' % i) patient = '%s - %s' % (tags['PatientID'], tags['PatientName']) study = '%s - %s' % (tags['StudyDate'], tags['StudyDescription']) series = '%s - %s' % (tags['Modality'], tags['SeriesDescription']) self.assertEqual('ozp00SjY2xG - KNIX', patient) self.assertEqual('20070101 - Knee (R)', study) self.assertEqual('MR - AX. FSE PD', series) self.assertEqual(1, len(ListFiles('/webdav/by-dates/', True))) self.assertEqual(1, len(ListFiles('/webdav/by-patients/', True))) self.assertEqual(1, len(ListFiles('/webdav/by-studies/', True))) self.assertEqual(3, len(ListFiles('/webdav/by-uids/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-patients/', False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-patients/'))) self.assertEqual(0, len(ListFiles('/webdav/by-patients/%s' % patient, False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-patients/%s' % patient))) self.assertEqual(0, len(ListFiles('/webdav/by-patients/%s/%s' % (patient, study), False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-patients/%s/%s' % (patient, study)))) folder = '/webdav/by-patients/%s/%s/%s' % (patient, study, series) self.assertEqual(1, len(ListFiles(folder, False))) self.assertEqual(2, len(WEBDAV.ls(folder))) self.assertEqual('%s/%s.dcm' % (folder, i), unquote(ListFiles(folder, False) [0])) files = ListFiles('/webdav/by-patients/', True) self.assertEqual(1, len(files)) self.assertEqual('%s/%s.dcm' % (folder, i), unquote(files[0])) a = DownloadFile('%s/%s.dcm' % (folder, i)) with open(GetDatabasePath('DummyCT.dcm'), 'rb') as f: self.assertEqual(a, f.read()) self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) WEBDAV.delete('%s/%s.dcm' % (folder, i)) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) self.assertEqual(0, len(ListFiles('/webdav/by-dates/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-patients/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-studies/', True))) self.assertEqual(0, len(ListFiles('/webdav/by-uids/', True))) def test_by_studies(self): self.assertEqual(0, len(ListFiles('/webdav/by-studies/', True))) self.assertEqual(1, len(WEBDAV.ls('/webdav/by-patients/'))) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) i = UploadInstance(ORTHANC, 'DummyCT.dcm')['ID'] tags = DoGet(ORTHANC, '/instances/%s/tags?simplify' % i) study = '%s - %s - %s' % (tags['PatientID'], tags['PatientName'], tags['StudyDescription']) series = '%s - %s' % (tags['Modality'], tags['SeriesDescription']) self.assertEqual('ozp00SjY2xG - KNIX - Knee (R)', study) self.assertEqual('MR - AX. FSE PD', series) self.assertEqual(0, len(ListFiles('/webdav/by-studies/', False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-studies/'))) self.assertEqual(0, len(ListFiles('/webdav/by-studies/%s' % study, False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-studies/%s' % study))) folder = '/webdav/by-studies/%s/%s' % (study, series) self.assertEqual(1, len(ListFiles(folder, False))) self.assertEqual(2, len(WEBDAV.ls(folder))) self.assertEqual('%s/%s.dcm' % (folder, i), unquote(ListFiles(folder, False) [0])) files = ListFiles('/webdav/by-studies/', True) self.assertEqual(1, len(files)) self.assertEqual('%s/%s.dcm' % (folder, i), unquote(files[0])) a = DownloadFile('%s/%s.dcm' % (folder, i)) with open(GetDatabasePath('DummyCT.dcm'), 'rb') as f: self.assertEqual(a, f.read()) self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) WEBDAV.delete('%s/%s.dcm' % (folder, i)) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) self.assertEqual(0, len(ListFiles('/webdav/by-studies/', True))) def test_by_dates(self): self.assertEqual(0, len(ListFiles('/webdav/by-dates/', True))) self.assertEqual(1, len(WEBDAV.ls('/webdav/by-patients/'))) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) i = UploadInstance(ORTHANC, 'DummyCT.dcm')['ID'] tags = DoGet(ORTHANC, '/instances/%s/tags?simplify' % i) year = tags['StudyDate'][0:4] month = tags['StudyDate'][4:6] study = '%s - %s - %s' % (tags['PatientID'], tags['PatientName'], tags['StudyDescription']) series = '%s - %s' % (tags['Modality'], tags['SeriesDescription']) self.assertEqual('ozp00SjY2xG - KNIX - Knee (R)', study) self.assertEqual('MR - AX. FSE PD', series) self.assertEqual(0, len(ListFiles('/webdav/by-dates/', False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-dates/'))) self.assertEqual(0, len(ListFiles('/webdav/by-dates/%s' % year, False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-dates/%s' % year))) self.assertEqual(0, len(ListFiles('/webdav/by-dates/%s/%s-%s' % (year, year, month), False))) self.assertEqual(2, len(WEBDAV.ls('/webdav/by-dates/%s/%s-%s' % (year, year, month)))) folder = '/webdav/by-dates/%s/%s-%s/%s/%s' % (year, year, month, study, series) self.assertEqual(1, len(ListFiles(folder, False))) self.assertEqual(2, len(WEBDAV.ls(folder))) self.assertEqual('%s/%s.dcm' % (folder, i), unquote(ListFiles(folder, False) [0])) files = ListFiles('/webdav/by-dates/', True) self.assertEqual(1, len(files)) self.assertEqual('%s/%s.dcm' % (folder, i), unquote(files[0])) a = DownloadFile('%s/%s.dcm' % (folder, i)) with open(GetDatabasePath('DummyCT.dcm'), 'rb') as f: self.assertEqual(a, f.read()) self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) WEBDAV.delete('%s/%s.dcm' % (folder, i)) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) self.assertEqual(0, len(ListFiles('/webdav/by-dates/', True))) def test_delete_folder(self): # These deletes should have no effect UploadInstance(ORTHANC, 'DummyCT.dcm') self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) WEBDAV.delete('/webdav/by-uids/1.2.840.113619.2.176.2025.1499492.7391.1171285944.390/study.json') WEBDAV.delete('/webdav/by-uids/1.2.840.113619.2.176.2025.1499492.7391.1171285944.390/1.2.840.113619.2.176.2025.1499492.7391.1171285944.394/series.json') WEBDAV.delete('/webdav/by-dates/2007/2007-02') WEBDAV.delete('/webdav/by-dates/2006') self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) for path in [ '/webdav/by-uids/1.2.840.113619.2.176.2025.1499492.7391.1171285944.390/1.2.840.113619.2.176.2025.1499492.7391.1171285944.394/1.2.840.113619.2.176.2025.1499492.7040.1171286242.109.dcm', '/webdav/by-patients/ozp00SjY2xG - KNIX/20070101 - Knee (R)/MR - AX. FSE PD/66a662ce-7430e543-bad44d47-0dc5a943-ec7a538d.dcm', '/webdav/by-studies/ozp00SjY2xG - KNIX - Knee (R)/MR - AX. FSE PD/66a662ce-7430e543-bad44d47-0dc5a943-ec7a538d.dcm', '/webdav/by-dates/2007/2007-01/ozp00SjY2xG - KNIX - Knee (R)/MR - AX. FSE PD/66a662ce-7430e543-bad44d47-0dc5a943-ec7a538d.dcm', ]: tokens = path.split('/') for i in range(4, len(tokens) + 1): p = '/'.join(tokens[0:i]) UploadInstance(ORTHANC, 'DummyCT.dcm') self.assertEqual(1, len(DoGet(ORTHANC, '/instances'))) WEBDAV.delete(p) self.assertEqual(0, len(DoGet(ORTHANC, '/instances'))) def test_upload_zip(self): f = StringIO() with zipfile.ZipFile(f, 'w') as z: z.writestr('hello/world/invalid.txt', 'Hello world') with open(GetDatabasePath('DummyCT.dcm'), 'rb') as g: c = g.read() z.writestr('hello/world/dicom1.dcm', c) z.writestr('hello/world/dicom2.dcm', c) f.seek(0) archive = f.read() self.assertEqual(0, len(DoGet(ORTHANC, '/studies'))) with tempfile.NamedTemporaryFile(delete = True) as f: f.close() with open(f.name, 'wb') as g: g.write(archive) WEBDAV.upload(f.name, '/webdav/uploads/DummyCT.zip') os.unlink(f.name) while len(ListFiles('/webdav/uploads/', True)) > 1: time.sleep(0.1) time.sleep(0.1) # Give some more delay to be sure that the store has succeeded (necessary for Wine) instances = DoGet(ORTHANC, '/instances') self.assertEqual(1, len(instances)) self.assertEqual('66a662ce-7430e543-bad44d47-0dc5a943-ec7a538d', instances[0]) try: print('\nStarting the tests...') unittest.main(argv = [ sys.argv[0] ] + args.options) finally: print('\nDone')