segLg = slicer.modules.segmentations.logic() AttributeError: module 'modules' has no attribute 'segmentations'

Development
,
1

Are the modules not fully imported? What’s wrong in py?

segLg = slicer.modules.segmentations.logic()
AttributeError: module ‘modules’ has no attribute ‘segmentations’
print(dir(slicer.modules))
[‘AddManyMarkupsFiducialTestInstance’, ‘AtlasTestsInstance’, ‘BRAINSFitRigidRegistrationCrashIssue4139Instance’, ‘ColorLegendSelfTestInstance’, ‘CompareVolumesInstance’, ‘CropVolumeSelfTestInstance’, ‘CropVolumeSequenceInstance’, ‘DICOMEnhancedUSVolumePluginInstance’, ‘DICOMGeAbusPluginInstance’, ‘DICOMImageSequencePluginInstance’, ‘DICOMInstance’, ‘DICOMPatcherInstance’, ‘DICOMScalarVolumePluginInstance’, ‘DICOMSlicerDataBundlePluginInstance’, ‘DICOMVolumeSequencePluginInstance’, ‘DataProbeInstance’, ‘EndoscopyInstance’, ‘ExtensionWizardInstance’, ‘FiducialLayoutSwitchBug1914Instance’, ‘ImportItkSnapLabelInstance’, ‘JRC2013VisInstance’, ‘JupyterNotebooksInstance’, ‘LandmarkRegistrationInstance’, ‘MarkupsInCompareViewersSelfTestInstance’, ‘MarkupsInViewsSelfTestInstance’, ‘MultiVolumeImporterInstance’, ‘MultiVolumeImporterPluginInstance’, ‘NeurosurgicalPlanningTutorialMarkupsSelfTestInstance’, ‘doc’, ‘file’, ‘loader’, ‘name’, ‘package’, ‘spec’, ‘dicomPlugins’, ‘registrationPlugins’]

However in python console this situation does not occur.

image

2

Is it a build you did yourself or downloaded and installed?

Are there any errors on startup?

3

downloaded and installed from https://download.slicer.org/bitstream/67c52e9629825655577d0353

4

That is Slicer 5.8.1 for mac, and when I run it this works:

>>> slicer.modules.segmentations.logic()
<vtkSlicerSegmentationsModuleLogicPython.vtkSlicerSegmentationsModuleLogic(0x600003b38af0) at 0x1b4b7f100>
5

Please answer this question too, this is the more important one. Thanks

6

image
image800×447 79.6 KB

7

You’ll need to narrow down to something reproducible or we can’t help you out.

8 
# ...docs/segLg.py
import slicer
segLg = slicer.modules.segmentations.logic()

For example, add the above file docs/segLg.py to modules as follows:

image
image824×201 45.5 KB

**The error is as follows:**

image
image794×216 40.7 KB

9

Ah, okay. Your module is being discovered before the segmentations has loaded.

You need something like:

self.parent.dependencies = ["Segmentations"]

in your module’s main class.

2 Likes
10

@pieper For example, how to modify segLg.py :backhand_index_pointing_down:?

import slicer
# ? self.parent.dependencies = ["Segmentations"]
segLg = slicer.modules.segmentations.logic()
11

Since you added this docs path to the module path it needs to be in the scripted module format, like you get when you use the ExtensionWizard. That’s there the dependency is expressed.

12

@pieper Teacher, could you be more specific? Could you give an example🌰?

13

Like here:

2 Likes
14 
import slicer
# self.parent.dependencies = ["Segmentations"]
print(f'{dir(slicer.modules)=}')
segLg = slicer.modules.segmentations.logic()

dir(slicer.modules)=['AddManyMarkupsFiducialTestInstance', 'AtlasTestsInstance', 'BRAINSFitRigidRegistrationCrashIssue4139Instance', 'ColorLegendSelfTestInstance', 'CompareVolumesInstance', 'CropVolumeSelfTestInstance', 'CropVolumeSequenceInstance', 'DICOMEnhancedUSVolumePluginInstance', 'DICOMGeAbusPluginInstance', 'DICOMImageSequencePluginInstance', 'DICOMInstance', 'DICOMPatcherInstance', 'DICOMScalarVolumePluginInstance', 'DICOMSlicerDataBundlePluginInstance', 'DICOMVolumeSequencePluginInstance', 'DataProbeInstance', 'EndoscopyInstance', 'ExtensionWizardInstance', 'FiducialLayoutSwitchBug1914Instance', 'ImportItkSnapLabelInstance', 'JRC2013VisInstance', 'JupyterNotebooksInstance', 'LandmarkRegistrationInstance', 'MarkupsInCompareViewersSelfTestInstance', 'MarkupsInViewsSelfTestInstance', 'MultiVolumeImporterInstance', 'MultiVolumeImporterPluginInstance', 'NeurosurgicalPlanningTutorialMarkupsSelfTestInstance', 'PedicleScrewPlannerInstance', 'PedicleScrewSimulatorInstance', 'PedicleTrianglePlannerInstance', 'PerformanceTestsInstance', 'PlotsSelfTestInstance', 'PluggableMarkupsSelfTestInstance', 'PyTorchUtilsInstance', 'RSNA2012ProstateDemoInstance', 'RSNAQuantTutorialInstance', 'RSNAVisTutorialInstance', 'SampleDataInstance', 'ScenePerformanceInstance', 'ScreenCaptureInstance', 'SegmentEditorInstance', 'SegmentStatisticsInstance', 'SelfTestsInstance', 'SequencesSelfTestInstance', 'ShaderPropertiesInstance', 'SimpleFiltersInstance', 'SliceLinkLogicInstance', 'Slicer4MinuteInstance', 'SlicerBoundsTestInstance', 'SlicerDisplayNodeSequenceTestInstance', 'SlicerMRBMultipleSaveRestoreLoopTestInstance', 'SlicerMRBMultipleSaveRestoreTestInstance', 'SlicerMRBSaveRestoreCheckPathsTestInstance', 'SlicerNNUNetInstance', 'SlicerOrientationSelectorTestInstance', 'SlicerPythonTestRunnerInstance', 'SlicerScriptedFileReaderWriterTestInstance', 'SubjectHierarchyCorePluginsSelfTestInstance', 'SubjectHierarchyGenericSelfTestInstance', 'SurfaceToolboxInstance', 'TablesSelfTestInstance', 'TotalSegmentatorInstance', 'UtilTestInstance', 'VectorToScalarVolumeInstance', 'ViewControllersSliceInterpolationBug1926Instance', 'VolumeRenderingSceneCloseInstance', 'WebEngineInstance', 'WebServerInstance', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__spec__', 'dicomPlugins', 'registrationPlugins', 'sampleDataSources', 'sceneImport2428Instance']
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/Applications/Slicer.app/Contents/lib/Python/lib/python3.9/imp.py", line 169, in load_source
    module = _exec(spec, sys.modules[name])
  File "<frozen importlib._bootstrap>", line 613, in _exec
  File "<frozen importlib._bootstrap_external>", line 850, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/Users/liguimei/Documents/ppPrj/Resources/docs/segLg.py", line 4, in <module>
    segLg = slicer.modules.segmentations.logic()
AttributeError: module 'modules' has no attribute 'segmentations'
[Qt] loadSourceAsModule - Failed to load file "/Users/liguimei/Documents/ppPrj/Resources/docs/segLg.py"  as module "segLg" !
[Qt] Fail to instantiate module  "segLg"

Still don’t understand…

15

@lassoan ?…………………………………………….