Console Output

Skipping 746 KB.. Full Log

/casa/host/build/include/anatomist/commands/cSetConnThres.h:56: warning: argument 'obj' of command @param is not found in the argument list of anatomist::SetConnThresholdCommand::SetConnThresholdCommand(AObject *image, AWindow *win, bool assignLowThreshold, float lowThres, bool assignHighThreshold, float highThres, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cSetConnThres.h:56: warning: argument 'refId' of command @param is not found in the argument list of anatomist::SetConnThresholdCommand::SetConnThresholdCommand(AObject *image, AWindow *win, bool assignLowThreshold, float lowThres, bool assignHighThreshold, float highThres, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cSetConnThres.h:56: warning: argument 'unser' of command @param is not found in the argument list of anatomist::SetConnThresholdCommand::SetConnThresholdCommand(AObject *image, AWindow *win, bool assignLowThreshold, float lowThres, bool assignHighThreshold, float highThres, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cSetConnThres.h:66: warning: The following parameters of anatomist::SetConnThresholdCommand::SetConnThresholdCommand(AObject *image, AWindow *win, bool assignLowThreshold, float lowThres, bool assignHighThreshold, float highThres, CommandContext *context=0) are not documented:
  parameter 'image'
  parameter 'assignLowThreshold'
  parameter 'lowThres'
  parameter 'assignHighThreshold'
  parameter 'highThres'
  parameter 'context'
/casa/host/build/include/anatomist/processor/Command.h:65: warning: Found unknown command '\tt'
/casa/host/build/include/anatomist/processor/Command.h:67: warning: Found unknown command '\tt'
/casa/host/build/include/anatomist/processor/Command.h:69: warning: Found unknown command '\tt'
/casa/host/build/include/anatomist/processor/Command.h:65: warning: Found unknown command '\tt'
/casa/host/build/include/anatomist/processor/Command.h:67: warning: Found unknown command '\tt'
/casa/host/build/include/anatomist/processor/Command.h:69: warning: Found unknown command '\tt'
/casa/host/build/include/anatomist/action/dynsegmentaction.h:65: warning: The following parameter of anatomist::RoiDynSegmentAction::update(const anatomist::Observable *observable, void *arg) is not documented:
  parameter 'arg'
lRenderShaderFusionMethod...
Generating docs for compound anatomist::VolRenderModule...
Generating docs for compound anatomist::VolRender...
Generating docs for compound anatomist::VolRenderShader...
Generating docs for compound anatomist::ProfileModule...
Generating docs for compound anatomist::RoiLevelSetActionSharedData...
Generating docs for compound anatomist::RoiLevelSetAction...
Generating docs for compound anatomist::RoiLabelNamingAction...
Generating docs for compound anatomist::ChangesItem...
Generating docs for compound anatomist::ChangedBucketsItem...
Generating docs for compound anatomist::RoiChangeProcessor...
Generating docs for compound anatomist::PaintStrategy...
Generating docs for compound anatomist::PointPaintStrategy...
Generating docs for compound anatomist::SquarePaintStrategy...
Generating docs for compound anatomist::DiskPaintStrategy...
Generating docs for compound anatomist::BallPaintStrategy...
Generating docs for compound anatomist::PaintActionSharedData...
Generating docs for compound anatomist::PaintAction...
Generating docs for compound anatomist::RoiBlobSegmentationAction...
Generating docs for compound anatomist::PaintControl...
Generating docs for compound anatomist::RoiLevelSetControl...
Generating docs for compound anatomist::RoiLabelNamingControl...
Generating docs for compound anatomist::RoiManagementActionSharedData...
Generating docs for compound anatomist::RoiManagementAction...
Generating docs for compound anatomist::RoiBaseModule...
Generating docs for compound anatomist::CreateGraphCommand...
Generating docs for compound anatomist::GetConnThresholdCommand...
Generating docs for compound anatomist::SetConnThresholdCommand...
Generating docs for compound anatomist::AddNodeCommand...
Generating docs for compound anatomist::PaintParamsCommand...
Generating docs for compound anatomist::RoiDynSegmentAction...
Generating docs for compound anatomist::RoiMorphoMathAction...
Generating docs for compound anatomist::RoiDynSegmentControl...
Generating docs for compound anatomist::RoiAlgoModule...
Generating docs for compound anatomist::HistogramModule...
Generating docs for namespace anatomist::internal
Generating docs for compound anatomist::internal::ColorTraitsType...
Generating docs for compound anatomist::internal::PaletteWinExtensionActions...
Generating docs for compound anatomist::internal::VectorFieldCoordSpinBox...
Generating docs for compound anatomist::internal::AGraphicsView...
Generating docs for compound anatomist::internal::AGraphicsScene...
Generating docs for compound anatomist::internal::TransformerActionData...
Generating docs for compound anatomist::internal::NoDragSlider...
Generating docs for compound anatomist::internal::CommandReader_Bridge...
Generating docs for namespace carto
Generating docs for compound carto::GLWidget...
Generating docs for namespace Vr
Generating docs for compound Vr::Creator...
Generating docs for compound Vr::CubeZBuffer...
Generating docs for compound Vr::MIPShader...
Generating docs for compound Vr::MPVRShader...
Generating docs for compound Vr::RfmtShader...
Generating docs for compound Vr::Shader...
Generating docs for compound Vr::ShaderFactory...
Generating docs for compound Vr::Slicing...
Generating docs for compound Vr::SumShader...
Generating docs for compound Vr::Vector3d...
Generating docs for compound Vr::VRShader...
Generating docs for compound Vr::VrSingleton...
Generating graph info page...
Generating directory documentation...
Generating dependency graph for directory anatomist/action
Generating dependency graph for directory anatomist
Generating dependency graph for directory anatomist/application
Generating dependency graph for directory anatomist/browser
Generating dependency graph for directory anatomist/bucket
Generating dependency graph for directory anatomist/color
Generating dependency graph for directory anatomist/commands
Generating dependency graph for directory anatomist/constrainteditor
Generating dependency graph for directory anatomist/control
Generating dependency graph for directory anatomist/controler
Gener/casa/host/build/include/anatomist/application/anatomist_doc.h:41: warning: image file anatomist.png is not found in IMAGE_PATH: assuming external image.
/casa/host/build/include/anatomist/application/anatomist_doc.h:41: warning: image file anatomist.png is not found in IMAGE_PATH: assuming external image.
ating dependency graph for directory anatomist/erpio
Generating dependency graph for directory anatomist/graph
Generating dependency graph for directory anatomist/hierarchy
Generating dependency graph for directory anatomist/interface
Generating dependency graph for directory anatomist/interpoler
Generating dependency graph for directory anatomist/landmark
Generating dependency graph for directory anatomist/mobject
Generating dependency graph for directory anatomist/module
Generating dependency graph for directory anatomist/object
Generating dependency graph for directory anatomist/processor
Generating dependency graph for directory anatomist/reference
Generating dependency graph for directory anatomist/selection
Generating dependency graph for directory anatomist/sparsematrix
Generating dependency graph for directory anatomist/stdmod
Generating dependency graph for directory anatomist/surface
Generating dependency graph for directory anatomist/surfmatcher
Generating dependency graph for directory anatomist/volume
Generating dependency graph for directory anatomist/window
Generating dependency graph for directory anatomist/window3D
Generating dependency graph for directory anatomist/winhisto
Generating dependency graph for directory anatomist/winprof
Generating index page...
Generating page index...
Generating module index...
Generating namespace index...
Generating namespace member index...
Generating annotated compound index...
Generating alphabetical compound index...
Generating hierarchical class index...
Generating graphical class hierarchy...
Generating member index...
Generating file index...
Generating file member index...
Generating example index...
finalizing index lists...
writing tag file...
Running plantuml with JAVA...
Running dot...
lookup cache used 18418/65536 hits=112141 misses=22464
finished...
[100%] Built target anatomist-doxygen
[100%] Built target pyanatomist-doxygen
[100%] Create "share/doc/5.2"
[100%] Built target anatomist-free-devdoc
[100%] Built target anatomist-free-doc
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,075::INFO::Found '0' pipeline(s) in 'deepsulci.sulci_labeling.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,075::INFO::Found '3' process(es) in 'deepsulci.sulci_labeling.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,075::INFO::Processing pipeline 'deepsulci.sulci_labeling.capsul.error_computation.ErrorComputation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,077::INFO::Processing pipeline 'deepsulci.sulci_labeling.capsul.labeling.SulciDeepLabeling'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,078::INFO::Processing pipeline 'deepsulci.sulci_labeling.capsul.training.SulciDeepTraining'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,080::INFO::Writing index at location '/casa/host/src/morphologist/morpho-deepsulci/master/sphinx/process_docs/deepsulci/sulci_labeling/process/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,080::INFO::process: '3' files written for module 'sulci_labeling' at location /casa/host/src/morphologist/morpho-deepsulci/master/sphinx/process_docs/deepsulci/sulci_labeling/process.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,080::INFO::Writing module 'sulci_labeling' index at location '/casa/host/src/morphologist/morpho-deepsulci/master/sphinx/process_docs/deepsulci/sulci_labeling/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:04,080::INFO::Index: an index has been written for module 'sulci_labeling' at location /casa/host/src/morphologist/morpho-deepsulci/master/sphinx/process_docs/deepsulci/sulci_labeling.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:04,843::INFO::Pipeline 'morphologist.capsul.morphologist.Morphologist' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.morphologist.Morphologist.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:04,920::INFO::Pipeline 'morphologist.capsul.spmnormalization.SPMnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.spmnormalization.SPMnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:05,038::INFO::Pipeline 'morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:05,130::INFO::Pipeline 'morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:05,130::INFO::Summary: '14' files written for module 'capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:05,540::INFO::Pipeline 'morphologist.capsul.morphologist.Morphologist' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.morphologist.Morphologist.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:05,624::INFO::Found '14' pipeline(s) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:05,624::INFO::Found '40' process(es) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:05,624::INFO::Processing pipeline 'morphologist.capsul.axon.axonmorphologist.AxonMorphologist'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:05,647::INFO::Pipeline 'morphologist.capsul.axon.normalization.Normalization' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.normalization.Normalization.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:05,712::INFO::Pipeline 'morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline.png'.
QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-a-sac-ns-brainvisa'
QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-a-sac-ns-brainvisa'
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:06,239::INFO::Pipeline 'morphologist.capsul.axon.axonmorphologist.AxonMorphologist' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.axonmorphologist.AxonMorphologist.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:06,239::INFO::Summary: '14' files written for module 'capsul'.
Starting Anatomist.....
config file : /casa/home/.anatomist/config/settings.cfg
This plugin does not support propagateSizeHints()
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:06,791::INFO::Found '14' pipeline(s) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:06,791::INFO::Found '40' process(es) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:06,791::INFO::Processing pipeline 'morphologist.capsul.axon.axonmorphologist.AxonMorphologist'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:07,978::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:07,984::INFO::Processing pipeline 'morphologist.capsul.axon.brainorientation.BrainOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,034::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,041::INFO::Processing pipeline 'morphologist.capsul.axon.normalization.Normalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,076::INFO::Processing pipeline 'morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,123::INFO::Processing pipeline 'morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,133::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabelling.SulciLabelling'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,155::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,166::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,174::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,181::INFO::Processing pipeline 'morphologist.capsul.morphologist.Morphologist'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-09-18 05:02:08,403::INFO::Found '0' pipeline(s) in 'deepsulci.pattern_classification.capsul'.
This plugin does not support propagateSizeHints()
PyAnatomist Module present
PythonLauncher::runModules()
Multitexturing present
function glActiveTexture found.
function glClientActiveTexture found.
function glBlendEquation found.
function glTexImage3D found.
function glMultiTexCoord3f found.
function glBindFramebuffer found.
function glBindRenderbuffer found.
function glFramebufferTexture2D found.
function glGenFramebuffers found.
function glGenRenderbuffers found.
function glFramebufferRenderbuffer found.
function glRenderbufferStorage found.
function glCheckFramebufferStatus found.
function glDeleteRenderbuffers found.
function glDeleteFramebuffers found.
Number of texture units: 8
function glUniform1f found.
function glUniform1i found.
function glUniform4fv found.
function glGetUniformLocation found.
function glMultTransposeMatrixf found.
function glAttachShader found.
function glDetachShader found.
function glCompileShader found.
function glCreateProgram found.
function glCreateShader found.
function glDeleteProgram found.
function glDeleteShader found.
function glGetProgramiv found.
function glGetShaderiv found.
function glLinkProgram found.
function glShaderSource found.
function glUseProgram found.
GL_ARB_shadow present
GL_SGIX_shadow extension not available
GL_SGIX_depth_texture extension not available
GL_ARB_depth_texture extension present
GL_ARB_texture_cube_map extension present
GL_EXT_texture_cube_map extension present
Number of texture units: 8
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,867::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMNormalization'...
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,893::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,907::INFO::Writing index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,907::INFO::pipeline: '14' files written for module 'capsul' at location /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,907::INFO::Processing pipeline 'morphologist.capsul.axon.acpcorientation.AcpcOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,908::INFO::Processing pipeline 'morphologist.capsul.axon.aimsconverter.AimsConverter'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,909::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationtoaims.BaladinNormalizationToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,909::INFO::Processing pipeline 'morphologist.capsul.axon.brainsegmentation.BrainSegmentation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,911::INFO::Processing pipeline 'morphologist.capsul.axon.brainvolumes.brainvolumes'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,912::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationtoaims.FSLnormalizationToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,912::INFO::Processing pipeline 'morphologist.capsul.axon.greywhiteclassificationhemi.GreyWhiteClassificationHemi'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,913::INFO::Processing pipeline 'morphologist.capsul.axon.greywhitemesh.GreyWhiteMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,914::INFO::Processing pipeline 'morphologist.capsul.axon.greywhitetopology.GreyWhiteTopology'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,914::INFO::Processing pipeline 'morphologist.capsul.axon.histoanalysis.HistoAnalysis'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,915::INFO::Processing pipeline 'morphologist.capsul.axon.importt1mri.ImportT1MRI'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,916::INFO::Processing pipeline 'morphologist.capsul.axon.morpho_report.morpho_report'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,916::INFO::Processing pipeline 'morphologist.capsul.axon.morphologistprocess.morphologistProcess'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,921::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_aimsmiregister.normalization_aimsmiregister'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,921::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_baladin.Normalization_Baladin'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,922::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_fsl_reinit.Normalization_FSL_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,923::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_spm_reinit.Normalization_SPM_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,923::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_t1_spm12_reinit.normalization_t1_spm12_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,924::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_t1_spm8_reinit.normalization_t1_spm8_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,925::INFO::Processing pipeline 'morphologist.capsul.axon.pialmesh.PialMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,926::INFO::Processing pipeline 'morphologist.capsul.axon.reorientanatomy.ReorientAnatomy'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,926::INFO::Processing pipeline 'morphologist.capsul.axon.scalpmesh.ScalpMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,927::INFO::Processing pipeline 'morphologist.capsul.axon.skullstripping.skullstripping'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,927::INFO::Processing pipeline 'morphologist.capsul.axon.splitbrain.SplitBrain'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,928::INFO::Processing pipeline 'morphologist.capsul.axon.spmsn3dtoaims.SPMsn3dToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,929::INFO::Processing pipeline 'morphologist.capsul.axon.sulcigraph.SulciGraph'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,929::INFO::Processing pipeline 'morphologist.capsul.axon.sulcigraphmorphometrybysubject.sulcigraphmorphometrybysubject'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,930::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingann.SulciLabellingANN'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,931::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspamglobal.SulciLabellingSPAMGlobal'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,931::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspamlocal.SulciLabellingSPAMLocal'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,932::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspammarkov.SulciLabellingSPAMMarkov'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,933::INFO::Processing pipeline 'morphologist.capsul.axon.sulciskeleton.SulciSkeleton'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,934::INFO::Processing pipeline 'morphologist.capsul.axon.t1biascorrection.T1BiasCorrection'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,936::INFO::Processing pipeline 'morphologist.capsul.axon.talairachtransformation.TalairachTransformation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,936::INFO::Processing pipeline 'morphologist.capsul.axon.talairachtransformationfromnormalization.TalairachTransformationFromNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,937::INFO::Processing pipeline 'morphologist.capsul.import_t1_mri.ImportT1Mri'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,944::INFO::Writing index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/process/index.rst'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:08,944::INFO::Index: an index has been written for module 'capsul' at location /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul.
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,211::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,217::INFO::Processing pipeline 'morphologist.capsul.axon.brainorientation.BrainOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,269::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,312::INFO::Processing pipeline 'morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,360::INFO::Processing pipeline 'morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,403::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,412::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:09,418::INFO::Processing pipeline 'morphologist.capsul.morphologist.Morphologist'...
generating CAPSUL processes docs...
['/usr/bin/python3.10', '-m', 'capsul.sphinxext.capsul_pipeline_rst', '-i', 'morphologist.capsul', '-o', '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist', '--schema']
loading pickled environment... done
loading intersphinx inventory from /casa/host/build/share/doc/soma-base-5.3/sphinx/objects.inv...
loading intersphinx inventory from /casa/host/build/share/doc/pyaims-5.2/sphinx/objects.inv...
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loading intersphinx inventory from doc/morphologist-ui-5.2/objects.inv...
WARNING: failed to reach any of the inventories with the following issues:
intersphinx inventory 'doc/morphologist-ui-5.2/objects.inv' not fetchable due to <class 'FileNotFoundError'>: [Errno 2] No such file or directory: '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/doc/morphologist-ui-5.2/objects.inv'
memory limit: 104169167257
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:10,091::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMNormalization'...
[autosummary] generating autosummary for: index.rst, process_docs/morphologist/capsul/index.rst, process_docs/morphologist/capsul/pipeline/index.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.axonmorphologist.AxonMorphologist.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.brainorientation.BrainOrientation.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalization.Normalization.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.rst, ..., process_docs/morphologist/capsul/process/morphologist.capsul.axon.sulciskeleton.SulciSkeleton.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.t1biascorrection.T1BiasCorrection.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.talairachtransformation.TalairachTransformation.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.talairachtransformationfromnormalization.TalairachTransformationFromNormalization.rst, process_docs/morphologist/capsul/process/morphologist.capsul.import_t1_mri.ImportT1Mri.rst, process_docs/morphologist/capsul/process/morphologist.capsul.morphologist_simple.MorphologistSimple.rst, process_docs/morphologist/capsul/process/morphologist.capsul.morphologist_viewer.MorphologistView.rst, process_docs/morphologist/capsul/process/morphologist.capsul.sulci_manip.graph_pointcloud_label.GraphPointCloudLabel.rst, process_docs/morphologist/capsul/process/morphologist.capsul.talairachtransformationfromnormalization.TalairachTransformationFromNormalization.rst, sulpated.rst
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:10,103::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMnormalizationPipeline'...
building [mo]: targets for 0 po files that are out of date
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:10,113::INFO::Writing index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/pipeline/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:10,113::INFO::pipeline: '14' files written for module 'capsul' at location /casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/pipeline.
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:10,115::INFO::Processing pipeline 'morphologist.capsul.axon.brainsegmentation.BrainSegmentation'...
building [html]: targets for 57 source files that are out of date
updating environment: /casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-09-18 05:02:10,116::INFO::Processing pipeline 'morphologist.capsul.axon.brainvolumes.brainvolumes'...
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bounding box found : 49, 51, 2
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reading sources... [ 26%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.spmnormalization.SPMNormalization
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reading sources... [ 29%] process_docs/morphologist/capsul/process/index
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generating CAPSUL processes docs...
['/usr/bin/python3.10', '-m', 'capsul.sphinxext.capsul_pipeline_rst', '-i', 'morphologist.capsul', '-o', '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist', '--schema']
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done
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reading sources... [ 82%] process_docs/morphologist/capsul/process/morphologist.capsul.axon.sulcilabellingspamlocal.SulciLabellingSPAMLocal
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reading sources... [ 89%] process_docs/morphologist/capsul/process/morphologist.capsul.axon.talairachtransformation.TalairachTransformation
reading sources... [ 91%] process_docs/morphologist/capsul/process/morphologist.capsul.axon.talairachtransformationfromnormalization.TalairachTransformationFromNormalization
reading sources... [ 92%] process_docs/morphologist/capsul/process/morphologist.capsul.import_t1_mri.ImportT1Mri
reading sources... [ 94%] process_docs/morphologist/capsul/process/morphologist.capsul.morphologist_simple.MorphologistSimple
reading sources... [ 96%] process_docs/morphologist/capsul/process/morphologist.capsul.morphologist_viewer.MorphologistView
[autosummary] generating autosummary for: index.rst, process_docs/morphologist/capsul/index.rst, process_docs/morphologist/capsul/pipeline/index.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.axonmorphologist.AxonMorphologist.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.brainorientation.BrainOrientation.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalization.Normalization.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped.rst, process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.rst, ..., process_docs/morphologist/capsul/process/morphologist.capsul.axon.sulcilabellingspammarkov.SulciLabellingSPAMMarkov.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.sulciskeleton.SulciSkeleton.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.t1biascorrection.T1BiasCorrection.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.talairachtransformation.TalairachTransformation.rst, process_docs/morphologist/capsul/process/morphologist.capsul.axon.talairachtransformationfromnormalization.TalairachTransformationFromNormalization.rst, process_docs/morphologist/capsul/process/morphologist.capsul.import_t1_mri.ImportT1Mri.rst, process_docs/morphologist/capsul/process/morphologist.capsul.morphologist_simple.MorphologistSimple.rst, process_docs/morphologist/capsul/process/morphologist.capsul.morphologist_viewer.MorphologistView.rst, process_docs/morphologist/capsul/process/morphologist.capsul.sulci_manip.graph_pointcloud_label.GraphPointCloudLabel.rst, process_docs/morphologist/capsul/process/morphologist.capsul.talairachtransformationfromnormalization.TalairachTransformationFromNormalization.rst
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reading sources... [  3%] process_docs/morphologist/capsul/pipeline/index

/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.rst:30: WARNING: duplicate label morphologist.capsul.axon.fslnormalizationpipeline.fslnormalizationpipeline_inputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.fslnormalization.FSLnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.rst:66: WARNING: duplicate label morphologist.capsul.axon.fslnormalizationpipeline.fslnormalizationpipeline_outputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.fslnormalization.FSLnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.rst:30: WARNING: duplicate label morphologist.capsul.axon.spmnormalizationpipeline.spmnormalizationpipeline_inputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.spmnormalization.SPMnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.rst:70: WARNING: duplicate label morphologist.capsul.axon.spmnormalizationpipeline.spmnormalizationpipeline_outputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.spmnormalization.SPMnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.fslnormalization.FSLnormalizationPipeline.rst:30: WARNING: duplicate label morphologist.capsul.axon.fslnormalizationpipeline.fslnormalizationpipeline_inputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.fslnormalization.FSLnormalizationPipeline.rst:66: WARNING: duplicate label morphologist.capsul.axon.fslnormalizationpipeline.fslnormalizationpipeline_outputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.spmnormalization.SPMnormalizationPipeline.rst:30: WARNING: duplicate label morphologist.capsul.axon.spmnormalizationpipeline.spmnormalizationpipeline_inputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.rst
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.spmnormalization.SPMnormalizationPipeline.rst:70: WARNING: duplicate label morphologist.capsul.axon.spmnormalizationpipeline.spmnormalizationpipeline_outputs, other instance in /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.rst
looking for now-outdated files... none found
pickling environment... reading sources... [  5%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.axonmorphologist.AxonMorphologist
done
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/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/index.rst:118: WARNING: Citation [PERROT2009] is not referenced.
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/index.rst:120: WARNING: Citation [PERROT2011] is not referenced.
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/index.rst:129: WARNING: Citation [TUCHOLKA2008] is not referenced.
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/index.rst:134: WARNING: Citation [KELLER2009] is not referenced.
/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/index.rst:139: WARNING: Citation [VAROQUAUX2010] is not referenced.
done
preparing documents... done
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reading sources... [ 12%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalization.Normalization
writing output... [  8%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline
reading sources... [ 14%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped
writing output... [ 10%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.brainorientation.BrainOrientation
writing output... [ 12%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline
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writing output... [ 13%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalization.Normalization
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writing output... [ 15%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped
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writing output... [ 20%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM
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reading sources... [ 29%] process_docs/morphologist/capsul/process/index
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writing output... [ 60%] process_docs/morphologist/capsul/process/morphologist.capsul.axon.normalization_spm_reinit.Normalization_SPM_reinit
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build succeeded, 2 warnings.

The HTML pages are in ../../share/doc/capsul-2.6.
reading sources... [ 90%] pyanatomist_threaded
[100%] Built target capsul-sphinx
[100%] Create "share/doc/2.6"
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reading sources... [ 92%] pyanatomist_tutorial
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QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-a-sac-ns-brainvisa'
QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-a-sac-ns-brainvisa'
Starting Anatomist.....
config file : /casa/home/.anatomist/config/settings.cfg
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
PyAnatomist Module present
PythonLauncher::runModules()
Multitexturing present
function glActiveTexture found.
function glClientActiveTexture found.
function glBlendEquation found.
function glTexImage3D found.
function glMultiTexCoord3f found.
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function glBindRenderbuffer found.
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function glFramebufferRenderbuffer found.
function glRenderbufferStorage found.
function glCheckFramebufferStatus found.
function glDeleteRenderbuffers found.
function glDeleteFramebuffers found.
Number of texture units: 8
function glUniform1f found.
function glUniform1i found.
function glUniform4fv found.
function glGetUniformLocation found.
function glMultTransposeMatrixf found.
function glAttachShader found.
function glDetachShader found.
function glCompileShader found.
function glCreateProgram found.
function glCreateShader found.
function glDeleteProgram found.
function glDeleteShader found.
function glGetProgramiv found.
function glGetShaderiv found.
function glLinkProgram found.
function glShaderSource found.
function glUseProgram found.
GL_ARB_shadow present
GL_SGIX_shadow extension not available
GL_SGIX_depth_texture extension not available
GL_ARB_depth_texture extension present
GL_ARB_texture_cube_map extension present
GL_EXT_texture_cube_map extension present
Number of texture units: 8
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
observable 0x56b76d3bd1f0(N9anatomist7AVolumeIsEE) could not be removed from observer 0x56b77d9402b8 (N9anatomist8Fusion2DE)
nifti transfo: 2
ATransformSet::unregisterObserver: ref 0x56b7805663b0 not found
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
nifti transfo: 2
ATransformSet::unregisterObserver: ref 0x56b782c7ab30 not found
nifti transfo: 2
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
memory limit: 104745418752
Warning: wrong filename_base in graph, trying to fix it
bounding box found : 0, 0, 0
                     255, 255, 123
This plugin does not support propagateSizeHints()
This plugin does not support raise()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
Traceback (most recent call last):
  File "/usr/local/lib/python3.10/dist-packages/ipykernel/eventloops.py", line 36, in process_stream_events
    def process_stream_events():
KeyboardInterrupt
This plugin does not support propagateSizeHints()
Exiting QApplication
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
This plugin does not support propagateSizeHints()
reading sources... [ 97%] pyanatomist_wip
reading sources... [100%] sg_execution_times

/casa/host/build/python/anatomist/cpp/followerobject.py:docstring of anatomist.cpp.followerobject:6: WARNING: Inline literal start-string without end-string.
WARNING: autodoc: failed to import module 'altas_viewer' from module 'anatomist'; the following exception was raised:
No module named 'anatomist.altas_viewer'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:20: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:20: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist.AObject'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:20: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist.AWindow'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:266: WARNING: File not found: '../../anatomist/dev_doc/commands.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:271: WARNING: File not found: 'pyanatomist_direct.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:271: WARNING: File not found: 'pyanatomist_socket.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:273: WARNING: File not found: 'pyanatomist_threaded.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:282: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:445: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#load-an-object'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:508: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#view-an-object'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:813: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist.AWindow.camera'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:836: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist.AItem.getInfos'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:879: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#zoom-translation-and-rotation-of-a-volume'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:940: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#read-header-information-voxel-size-dimension-image'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:966: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#modification-of-color-palette'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1060: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#view-meshes'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1086: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#superimposing-objects'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1114: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#change-the-mesh-material'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1208: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist.fusionObjects'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1210: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#fusion-between-2-volumes'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1281: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#load-a-transformation'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1306: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#load-an-existing-referential'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1399: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#load-referential-information-from-file-header'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1460: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#display-a-graph-of-roi'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1465: WARNING: File not found: 'pyanatomist_base.html#anatomist.base.Anatomist.execute'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1467: WARNING: File not found: '../../anatomist/dev_doc/commands.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1469: WARNING: File not found: '../../anatomist/dev_doc/commands.html#fusion2dparams'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1520: WARNING: File not found: '../../anatomist/doxygen/index.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1522: WARNING: File not found: 'pyanatomist_pyaims_tutorial.html'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1524: WARNING: File not found: '../../anatomist/user_doc/anatomist_tutorial.html#anasimpleviewer'
/casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_tutorial_nb.ipynb:1524: WARNING: File not found: 'pyanatomist_examples.html#simple-viewer'
looking for now-outdated files... none found
pickling environment... done
checking consistency... /casa/host/src/anatomist/anatomist-gpl/master/pyanatomist/doc/sphinx/pyanatomist_addons.rst: WARNING: document isn't included in any toctree
done
preparing documents... done
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generating indices... genindex py-modindex done
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highlighting module code... [  6%] _thread
highlighting module code... [ 13%] anatomist
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Sphinx-Gallery successfully executed 0 out of 0 files subselected by:

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after excluding 13 files that had previously been run (based on MD5).

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build succeeded, 35 warnings.

The HTML pages are in ../../../share/doc/pyanatomist-5.2/sphinx.
PyAnatomist Module present
PythonLauncher::runModules()
[100%] Built target anatomist-gpl-sphinx
[100%] Create "share/doc/5.2"
[100%] Built target anatomist-gpl-devdoc
[100%] Built target devdoc
[100%] Built target anatomist-gpl-doc
Generating BrainVISA processes documentation
[100%] Built target bv_ontology_doc
[100%] Built target bv_doc_index
[100%] Built target axon-doc
[100%] Built target doc

bv_maker summary:
OK          step doc: /casa/host/build, started: 2025/09/18 05:01, stopped: 2025/09/18 05:04
All went good.

Finished: SUCCESS