def test_PlusModelCatalogBrowser1(self):
self.delayDisplay("Starting the test")
logic = PlusModelCatalogBrowserLogic()
logic.showBrowser()
logic.handleClick(qt.QUrl('http://perk-software.cs.queensu.ca/plus/doc/nightly/modelcatalog/'))
logic.handleClick(qt.QUrl('http://perk-software.cs.queensu.ca/plus/doc/nightly/modelcatalog/printable/CauteryGrabber.STL'))
logic.hideBrowser()
self.assertIsNotNone( slicer.util.getNode('CauteryGrabber') )
self.delayDisplay('Test passed!')
def onURLReceived(self, urlString):
"""Process DICOM view requests. Example:
slicer://viewer/?studyUID=2.16.840.1.113669.632.20.121711.10000158860
&access_token=k0zR6WAPpNbVguQ8gGUHp6
&dicomweb_endpoint=http%3A%2F%2Fdemo.kheops.online%2Fapi
&dicomweb_uri_endpoint=%20http%3A%2F%2Fdemo.kheops.online%2Fapi%2Fwado
"""
url = qt.QUrl(urlString)
if (url.authority().lower() != "viewer"):
return
query = qt.QUrlQuery(url)
queryMap = {}
for key, value in query.queryItems(qt.QUrl.FullyDecoded):
queryMap[key] = qt.QUrl.fromPercentEncoding(value)
if not "dicomweb_endpoint" in queryMap:
logging.error("Missing dicomweb_endpoint")
return
if not "studyUID" in queryMap:
logging.error("Missing studyUID")
return
accessToken = None
if "access_token" in queryMap:
accessToken = queryMap["access_token"]
slicer.util.selectModule("DICOM")
slicer.app.processEvents()
from DICOMLib import DICOMUtils
DICOMUtils.importFromDICOMWeb(
dicomWebEndpoint=queryMap["dicomweb_endpoint"],
studyInstanceUID=queryMap["studyUID"],
accessToken=accessToken)
def printReport(self, currentValuesDict, callback):
""" Generate a html report file and print it
:param currentValuesDict: dictionary of GUI values
"""
if not self.isCurrentReportSaved:
# Save the report first
self.saveReport(currentValuesDict)
# Generate the snapshots of the images
self.__printSnapshots__()
self.callback = callback
# Generate the html code
html = self.__generateHtml__(currentValuesDict)
# Write the html to a temp file
p = os.path.join(self.getCurrentDataFolder(), "report.html")
with open(p, "w+b") as f:
f.write(html)
self.webView = qt.QWebView()
self.webView.settings().setAttribute(
qt.QWebSettings.DeveloperExtrasEnabled, True)
self.webView.connect('loadFinished(bool)',
self.__webViewFormLoadedCallback__)
self.webView.show()
u = qt.QUrl(p)
self.webView.setUrl(u)
def notifyChanged(self):
elem = find_dita_class(traverse_to_element(self.__plugin()), \
"topic/link", "topic/xref", "map/topicref")
if not elem:
return 1
attr = elem.attrs().getAttribute("href")
if attr.isNull() or attr.value().isEmpty():
return 1
path = unicode(attr.value())
pos = path.find('#')
idref = ""
if pos >= 0:
idref = path[pos+1:]
path = path[0:pos]
if not path:
return self.goLocal(elem, idref)
sysurl = qt.QUrl(self.__sysid)
if qt.QUrl.isRelativeUrl(path):
tpath = qt.QUrl(sysurl)
tpath.setFileName("")
tpath.addPath(path)
path = unicode(tpath.toString())
if sysurl == qt.QUrl(path):
return self.goLocal(elem, idref)
format = elem.attrs().getAttribute("format")
if format.isNull() or format.value().isEmpty():
format = u""
else:
format = unicode(format.value())
if format in (u"xml", u"dita", u"ditamap") or path.endswith(u".xml") or \
path.endswith(u".dita") or path.endswith(u".ditamap"):
self.openDocument(path)
return 0
if format is None or 0 == len(format):
path = unicode(qt.QUrl(path).path())
# Get path extension
pos = path.rfind('.')
if pos >= 0:
format = path[pos+1:]
ptn = PropertyNode("browser-params")
ptn.makeDescendant("url").setString(norm_slashes(path))
ptn.makeDescendant("extension").setString(unicode(format))
rv = self.__plugin().executeCommandEvent("LaunchBrowser", ptn)
return 0
def onSwitchToSegmentEditor(self, link):
if link == '#SwitchToSegmentEditor':
slicer.util.selectModule('SegmentEditor')
editorWidget = slicer.modules.segmenteditor.widgetRepresentation().self()
if editorWidget is not None and self.helper is not None:
masterNode = self.helper.masterSelector.currentNode()
editorWidget.parameterSetNode.SetAndObserveMasterVolumeNode(masterNode)
elif link == '#Feedback':
qt.QDesktopServices.openUrl(qt.QUrl('http://massmail.spl.harvard.edu/mailman/listinfo/slicer-users'))
def webViewFormTest(self):
"""Just as a demo, load a google search in a web view
and use the qt api to fill in a search term"""
self.webView = qt.QWebView()
self.webView.settings().setAttribute(
qt.QWebSettings.DeveloperExtrasEnabled, True)
self.webView.connect('loadFinished(bool)',
self.webViewFormLoadedCallback)
self.webView.show()
u = qt.QUrl('https://www.google.com')
self.webView.setUrl(u)
def printPdf(
self,
htmlTemplatePath,
values,
callbackFunction,
pdfOutputPath=None,
imagesFileList=None,
tempHtmlFolder=None,
):
"""
Print a pdf file with the html stored in htmlPath and the specified values
:param htmlTemplatePath: path to the html file that contains the template
:param values: dictionary of values that will be used to build the final html
:param callbackFunction: function that will be called when the process has finished (it is an asynchronous process)
:param pdfOutputPath: path to the pdf file that will be created (if none, it will be saved in a temp file)
:param imagesFileList: list of full paths to images that may be needed to generate the report
:param tempHtmlFolder: folder where all the intermediate files will be stored. If none, a temporary folder will be used
"""
if tempHtmlFolder is None:
tempHtmlFolder = tempfile.mkdtemp()
self.__pdfOutputPath__ = pdfOutputPath if pdfOutputPath is not None else os.path.join(
tempHtmlFolder, "report.pdf")
self.__callbackFunction__ = callbackFunction
self.webView = qt.QWebView()
self.webView.settings().setAttribute(
qt.QWebSettings.DeveloperExtrasEnabled, True)
self.webView.connect('loadFinished(bool)',
self.__webViewFormLoadedCallback__)
self.webView.show()
# Generate the Html
with open(htmlTemplatePath, "r+b") as f:
html = f.read()
for key, value in values.iteritems():
html = html.replace(key, value)
# Save the file in the temporary folder
htmlPath = os.path.join(tempHtmlFolder, "temp__.html")
with open(htmlPath, "w") as f:
f.write(html)
logging.debug("Html generated in {}".format(htmlPath))
# If we need images, copy them to the temporary folder
if imagesFileList:
for im in imagesFileList:
fileName = os.path.basename(im)
shutil.copy(im, os.path.join(tempHtmlFolder, fileName))
# Assign the html file to the viewer
u = qt.QUrl(htmlPath)
self.webView.setUrl(u)
def __init__(self, files, address, protocol=None, progressCallback=None):
"""protocol: can be DIMSE (default) or DICOMweb
port: optional (if not specified then address URL should contain it)
"""
super().__init__()
self.files = files
self.destinationUrl = qt.QUrl().fromUserInput(address)
self.protocol = protocol if protocol is not None else "DIMSE"
self.progressCallback = progressCallback
if not self.progressCallback:
self.progressCallback = self.defaultProgressCallback
self.send()
def __init__(self):
self.catalogMainUrl = qt.QUrl('http://perk-software.cs.queensu.ca/plus/doc/nightly/modelcatalog/')
self.catalogName = 'Plus toolkit 3D model catalog'
self.browser = qt.QWebView()
# Change QWebView such that link clicks are not automatically acted on
# When links are clicked, run the handleClick() function
self.browser.page().setLinkDelegationPolicy(qt.QWebPage.DelegateAllLinks)
self.browser.linkClicked.connect(self.handleClick)
self.downloadProgressBar = qt.QProgressDialog()
self.downloadProgressBar.setLabelText('Downloading File')
def onURLReceived(self, urlString):
"""Process DICOM view requests. Example:
slicer://viewer/?studyUID=2.16.840.1.113669.632.20.121711.10000158860
&access_token=k0zR6WAPpNbVguQ8gGUHp6
&dicomweb_endpoint=http%3A%2F%2Fdemo.kheops.online%2Fapi
&dicomweb_uri_endpoint=%20http%3A%2F%2Fdemo.kheops.online%2Fapi%2Fwado
"""
url = qt.QUrl(urlString)
if (url.authority().lower() != "viewer"):
logging.debug("DICOM module ignores non-viewer URL: " + urlString)
return
query = qt.QUrlQuery(url)
queryMap = {}
for key, value in query.queryItems(qt.QUrl.FullyDecoded):
queryMap[key] = qt.QUrl.fromPercentEncoding(value)
if "dicomweb_endpoint" not in queryMap:
logging.debug(
"DICOM module ignores URL without dicomweb_endpoint query parameter: "
+ urlString)
return
if "studyUID" not in queryMap:
logging.debug(
"DICOM module ignores URL without studyUID query parameter: " +
urlString)
return
logging.info("DICOM module received URL: " + urlString)
accessToken = None
if "access_token" in queryMap:
accessToken = queryMap["access_token"]
slicer.util.selectModule("DICOM")
slicer.app.processEvents()
from DICOMLib import DICOMUtils
importedSeriesInstanceUIDs = DICOMUtils.importFromDICOMWeb(
dicomWebEndpoint=queryMap["dicomweb_endpoint"],
studyInstanceUID=queryMap["studyUID"],
accessToken=accessToken)
# Select newly loaded items to make it easier to load them
self.browserWidget.dicomBrowser.setSelectedItems(
ctk.ctkDICOMModel.SeriesType, importedSeriesInstanceUIDs)
def onShowRegistrationParametersDatabaseFolder(self):
qt.QDesktopServices().openUrl(qt.QUrl("file:///" + self.logic.registrationParameterFilesDir, qt.QUrl.TolerantMode));
def onShowTemporaryFilesFolder(self):
qt.QDesktopServices().openUrl(qt.QUrl("file:///" + self.logic.getTempDirectoryBase(), qt.QUrl.TolerantMode));
def openLocalConnection(self):
qt.QDesktopServices.openUrl(
qt.QUrl(f'http://localhost:{self.logic.port}'))
def test_WebEngine1(self):
""" Testing WebEngine
"""
self.delayDisplay("Starting the test")
webWidget = slicer.qSlicerWebWidget()
webWidget.size = qt.QSize(1024, 512)
webWidget.webView().url = qt.QUrl("")
webWidget.show()
self.delayDisplay('Showing widget')
webWidget.evalJS("""
const paragraph = document.createElement('p');
paragraph.innerText = 'Hello from Slicer!';
document.body.appendChild(paragraph);
""")
self.delayDisplay('Slicer should be saying hello!')
#
# Test javascript evaluation + use of "evalResult()" signal
#
webWidget.connect("evalResult(QString,QString)", self.onEvalResult)
self.delayDisplay('Slicer setting a javascript value')
webWidget.evalJS("const valueFromSlicer = 42;")
webWidget.evalJS("valueFromSlicer;")
iteration = 0
while not self.gotResponse and iteration < 3:
# Specify an explicit delay to ensure async execution by the
# webengine has completed.
self.delayDisplay('Waiting for response...', msec=500)
iteration += 1
webWidget.disconnect("evalResult(QString,QString)", self.onEvalResult)
if not self.gotResponse:
raise RuntimeError("Never got response from evalJS")
if not self.gotCorrectResponse:
raise AssertionError("Did not get back expected result!")
#
# Test python evaluation from javascript
#
self.delayDisplay('Call a python method')
slicer.app.settings().setValue("WebEngine/AllowPythonExecution",
ctk.ctkMessageBox.AcceptRole)
webWidget.evalJS(r"""
let pythonCode = "dialog = qt.QInputDialog(slicer.util.mainWindow())\n";
pythonCode += "dialog.setLabelText('hello')\n";
pythonCode += "dialog.open()\n";
pythonCode += "qt.QTimer.singleShot(1000, dialog.close)\n";
window.slicerPython.evalPython(pythonCode);
""")
self.delayDisplay('Test access to python via js', msec=500)
if hasattr(slicer.modules, 'slicerPythonValueFromJS'):
del slicer.modules.slicerPythonValueFromJS
webWidget.evalJS("""
window.slicerPython.evalPython("slicer.modules.slicerPythonValueFromJS = 42");
""")
iteration = 0
while iteration < 3 and not hasattr(slicer.modules,
'slicerPythonValueFromJS'):
# Specify an explicit delay to ensure async execution by the
# webengine has completed.
self.delayDisplay('Waiting for python value from JS...', msec=500)
iteration += 1
if iteration >= 3:
raise RuntimeError("Couldn't get python value back from JS")
self.delayDisplay('Value of %d received via javascipt' %
slicer.modules.slicerPythonValueFromJS)
del slicer.modules.slicerPythonValueFromJS
self.delayDisplay('Test passed!')
def onEditSource(self):
filePath = slicer.util.modulePath(self.moduleName)
qt.QDesktopServices.openUrl(
qt.QUrl("file:///" + filePath, qt.QUrl.TolerantMode))
def send(self):
self.progressCallback("Starting send to %s using self.protocol" %
self.destinationUrl.toString())
if self.protocol == "DICOMweb":
# DICOMweb
# Ensure that correct version of dicomweb-client Python package is installed
needRestart = False
needInstall = False
minimumDicomwebClientVersion = "0.51"
try:
import dicomweb_client
from packaging import version
if version.parse(dicomweb_client.__version__) < version.parse(
minimumDicomwebClientVersion):
if not slicer.util.confirmOkCancelDisplay(
f"DICOMweb sending requires installation of dicomweb-client (version {minimumDicomwebClientVersion} or later).\nClick OK to upgrade dicomweb-client and restart the application."
):
self.showBrowserOnEnter = False
return
needRestart = True
needInstall = True
except ModuleNotFoundError:
needInstall = True
if needInstall:
# pythonweb-client 0.50 was broken (https://github.com/MGHComputationalPathology/dicomweb-client/issues/41)
progressDialog = slicer.util.createProgressDialog(
labelText=
'Upgrading dicomweb-client. This may take a minute...',
maximum=0)
slicer.app.processEvents()
slicer.util.pip_install(
f'dicomweb-client>={minimumDicomwebClientVersion}')
import dicomweb_client
progressDialog.close()
if needRestart:
slicer.util.restart()
# Establish connection
import dicomweb_client.log
dicomweb_client.log.configure_logging(2)
from dicomweb_client.api import DICOMwebClient
effectiveServerUrl = self.destinationUrl.toString()
session = None
headers = {}
# Setting up of the DICOMweb client from various server parameters can be done
# in plugins in the future, but for now just hardcode special initialization
# steps for a few server types.
if "kheops" in effectiveServerUrl:
# Kheops DICOMweb API endpoint from browser view URL
url = qt.QUrl(effectiveServerUrl)
if url.path().startswith('/view/'):
# This is a Kheops viewer URL.
# Retrieve the token from the viewer URL and use the Kheops API URL to connect to the server.
token = url.path().replace('/view/', '')
effectiveServerUrl = "https://demo.kheops.online/api"
from requests.auth import HTTPBasicAuth
from dicomweb_client.session_utils import create_session_from_auth
auth = HTTPBasicAuth('token', token)
session = create_session_from_auth(auth)
client = DICOMwebClient(url=effectiveServerUrl,
session=session,
headers=headers)
for file in self.files:
if not self.progressCallback(
f"Sending {file} to {self.destinationUrl.toString()} using {self.protocol}"
):
raise UserWarning(
"Sending was cancelled, upload is incomplete.")
import pydicom
dataset = pydicom.dcmread(file)
client.store_instances(datasets=[dataset])
else:
# DIMSE (traditional DICOM networking)
for file in self.files:
self.start(file)
if not self.progressCallback(
f"Sent {file} to {self.destinationUrl.host()}:{self.destinationUrl.port()}"
):
raise UserWarning(
"Sending was cancelled, upload is incomplete.")
def onShowCreatedOutputFile(self):
if not self.createdOutputFile:
return
qt.QDesktopServices().openUrl(
qt.QUrl("file:///" + self.createdOutputFile, qt.QUrl.TolerantMode))
def openURL(self, URL):
qt.QDesktopServices().openUrl(qt.QUrl(URL))
QDesktopServices
def printPdf(
self,
htmlTemplatePath,
values,
callbackFunction,
pdfOutputPath=None,
imagesFileList=None,
tempHtmlFolder=None,
):
"""
Print a pdf file with the html stored in htmlPath and the specified values
:param htmlTemplatePath: path to the html file that contains the template
:param values: dictionary of values that will be used to build the final html
:param callbackFunction: function that will be called when the process has finished (it is an asynchronous process)
:param pdfOutputPath: path to the pdf file that will be created (if none, it will be saved in a temp file)
:param imagesFileList: list of full paths to images that may be needed to generate the report
:param tempHtmlFolder: folder where all the intermediate files will be stored. If none, a temporary folder will be used
"""
if tempHtmlFolder is None:
tempHtmlFolder = tempfile.mkdtemp()
self.__pdfOutputPath__ = pdfOutputPath if pdfOutputPath is not None else os.path.join(
tempHtmlFolder, "report.pdf")
self.__callbackFunction__ = callbackFunction
# Generate the Html
with open(htmlTemplatePath, "r") as f:
html = f.read()
for key, value in values.items():
html = html.replace(key, value)
# If we need images, copy them to the temporary folder
if imagesFileList:
for im in imagesFileList:
fileName = os.path.basename(im)
shutil.copy(im, os.path.join(tempHtmlFolder, fileName))
if hasattr(qt, 'QWebView'):
# Save the file in the temporary folder
htmlPath = os.path.join(tempHtmlFolder, "temp__.html")
with open(htmlPath, "w") as f:
f.write(html)
logging.debug("Html generated in {}".format(htmlPath))
# Create a web browser for rendering html
self.webView = qt.QWebView()
self.webView.settings().setAttribute(
qt.QWebSettings.DeveloperExtrasEnabled, True)
self.webView.connect('loadFinished(bool)',
self.__webViewFormLoadedCallback__)
u = qt.QUrl(htmlPath)
self.webView.setUrl(u)
self.webView.show()
else:
printer = qt.QPrinter(qt.QPrinter.PrinterResolution)
printer.setOutputFormat(qt.QPrinter.PdfFormat)
printer.setPaperSize(qt.QPrinter.A4)
printer.setOutputFileName(self.__pdfOutputPath__)
doc = qt.QTextDocument()
doc.setHtml(html)
doc.baseUrl = qt.QUrl.fromLocalFile(tempHtmlFolder + "/")
doc.setPageSize(qt.QSizeF(
printer.pageRect().size())) # hide the page number
doc.print(printer)
# Call the callback
self.__callbackFunction__(self.__pdfOutputPath__)
self.__callbackFunction__ = None
def onHelpBrowserPressed(self):
qt.QDesktopServices.openUrl(qt.QUrl("https://fastslice.github.io/"))