Console Output

Skipping 806 KB.. Full Log

/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/commands/cGetConnThres.h:58: warning: argument 'ref' of command @param is not found in the argument list of anatomist::GetConnThresholdCommand::GetConnThresholdCommand(AObject *image, AWindow *win, const std::string &requestid, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cGetConnThres.h:58: warning: argument 'obj' of command @param is not found in the argument list of anatomist::GetConnThresholdCommand::GetConnThresholdCommand(AObject *image, AWindow *win, const std::string &requestid, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cGetConnThres.h:58: warning: argument 'refId' of command @param is not found in the argument list of anatomist::GetConnThresholdCommand::GetConnThresholdCommand(AObject *image, AWindow *win, const std::string &requestid, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cGetConnThres.h:58: warning: argument 'unser' of command @param is not found in the argument list of anatomist::GetConnThresholdCommand::GetConnThresholdCommand(AObject *image, AWindow *win, const std::string &requestid, CommandContext *context=0)
/casa/host/build/include/anatomist/commands/cGetConnThres.h:68: warning: The following parameters of anatomist::GetConnThresholdCommand::GetConnThresholdCommand(AObject *image, AWindow *win, const std::string &requestid, CommandContext *context=0) are not documented:
  parameter 'image'
  parameter 'requestid'
  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/commands/cSetConnThres.h:56: warning: argument 'ref' 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 '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.

generating indices... genindex py-modindex done
copying linked files... 
copying notebooks ... 
highlighting module code... [  1%] brainvisa.anatomist
highlighting module code... [  3%] brainvisa.axon.processes
highlighting module code... [  5%] brainvisa.configuration.anatomist_configuration
highlighting module code... [  7%] brainvisa.configuration.brainvisa_configuration
highlighting module code... [  8%] brainvisa.configuration.databases_configuration
highlighting module code... [ 10%] brainvisa.configuration.fsl_configuration
highlighting module code... [ 12%] brainvisa.configuration.matlab_configuration
highlighting module code... [ 14%] brainvisa.configuration.neuroConfig
highlighting module code... [ 16%] brainvisa.configuration.qt4gui.databases_configuration_qt4gui
highlighting module code... [ 17%] brainvisa.configuration.qt4gui.matlab_configuration_qt4gui
highlighting module code... [ 19%] brainvisa.configuration.qt4gui.neuroConfigGUI
highlighting module code... [ 21%] brainvisa.configuration.qt4gui.spm_configuration_qt4gui
highlighting module code... [ 23%] brainvisa.configuration.r_configuration
highlighting module code... [ 25%] brainvisa.configuration.soma_workflow_configuration
highlighting module code... [ 26%] brainvisa.configuration.spm_configuration
highlighting module code... [ 28%] brainvisa.data.actions
highlighting module code... [ 30%] brainvisa.data.databaseCheck
highlighting module code... [ 32%] brainvisa.data.fileSystemOntology
highlighting module code... [ 33%] brainvisa.data.ftpDirectory
highlighting module code... [ 35%] brainvisa.data.labelSelection
highlighting module code... [ 37%] brainvisa.data.neuroData
highlighting module code... [ 39%] brainvisa.data.neuroDiskItems
highlighting module code... [ 41%] brainvisa.data.neuroHierarchy
highlighting module code... [ 42%] brainvisa.data.patterns
highlighting module code... [ 44%] brainvisa.data.qt4gui.databaseCheckGUI
highlighting module code... [ 46%] brainvisa.data.qt4gui.diskItemBrowser
highlighting module code... [ 48%] brainvisa.data.qt4gui.hierarchyBrowser
highlighting module code... [ 50%] brainvisa.data.qt4gui.history
highlighting module code... [ 51%] brainvisa.data.qt4gui.labelSelectionGUI
highlighting module code... [ 53%] brainvisa.data.qt4gui.neuroDataGUI
highlighting module code... [ 55%] brainvisa.data.qt4gui.readdiskitemGUI
highlighting module code... [ 57%] brainvisa.data.qt4gui.updateDatabases
highlighting module code... [ 58%] brainvisa.data.readdiskitem
highlighting module code... [ 60%] brainvisa.data.sqlFSODatabase
highlighting module code... [ 62%] brainvisa.data.temporary
highlighting module code... [ 64%] brainvisa.data.virtualDirectory
highlighting module code... [ 66%] brainvisa.data.writediskitem
highlighting module code... [ 67%] brainvisa.history
highlighting module code... [ 69%] brainvisa.multipleExecfile
highlighting module code... [ 71%] brainvisa.processes
highlighting module code... [ 73%] brainvisa.processing.axon_fso_to_fom
highlighting module code... [ 75%] brainvisa.processing.axon_to_capsul
highlighting module code... [ 76%] brainvisa.processing.capsul_process
highlighting module code... [ 78%] brainvisa.processing.neuroException
highlighting module code... [ 80%] brainvisa.processing.neuroLog
highlighting module code... [ 82%] brainvisa.processing.process_based_viewer
highlighting module code... [ 83%] brainvisa.processing.qt4gui.neuroExceptionGUI
highlighting module code... [ 85%] brainvisa.processing.qt4gui.neuroLogGUI
highlighting module code... [ 87%] brainvisa.processing.qt4gui.neuroProcessesGUI
highlighting module code... [ 89%] brainvisa.registration
highlighting module code... [ 91%] brainvisa.toolboxes
highlighting module code... [ 92%] brainvisa.tools.aimsGlobals
highlighting module code... [ 94%] brainvisa.tools.displayTitledGrid
highlighting module code... [ 96%] brainvisa.tools.spm_run
highlighting module code... [ 98%] brainvisa.tools.spm_utils
highlighting module code... [100%] brainvisa.validation

writing additional pages... search done
copying downloadable files... [100%] ../../../../build/build_files/axon/usecases_nb.ipynb

copying static files... 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 18411/65536 hits=112114 misses=22457
finished...
done
copying extra files... done
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 191 warnings.

The HTML pages are in ../../share/doc/axon-5.2/dev_doc.
[100%] Built target anatomist-doxygen
[100%] Built target pyanatomist-doxygen
[100%] Create "share/doc/5.2"
[100%] Create "share/doc/5.2"
[100%] Built target anatomist-free-devdoc
[100%] Built target anatomist-gpl-devdoc
[100%] Built target anatomist-free-doc
[100%] Built target anatomist-gpl-doc
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:42,945::INFO::Found '0' pipeline(s) in 'deepsulci.sulci_labeling.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:42,945::INFO::Found '3' process(es) in 'deepsulci.sulci_labeling.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:42,945::INFO::Processing pipeline 'deepsulci.sulci_labeling.capsul.error_computation.ErrorComputation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:42,946::INFO::Processing pipeline 'deepsulci.sulci_labeling.capsul.labeling.SulciDeepLabeling'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:42,955::INFO::Processing pipeline 'deepsulci.sulci_labeling.capsul.training.SulciDeepTraining'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:42,956::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::2025-07-04 07:22:42,956::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::2025-07-04 07:22:42,956::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::2025-07-04 07:22:42,956::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::2025-07-04 07:22:43,487::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::2025-07-04 07:22:43,552::INFO::Pipeline 'morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:43,617::INFO::Pipeline 'morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:43,864::INFO::Pipeline 'morphologist.capsul.axon.sulcilabelling.SulciLabelling' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.sulcilabelling.SulciLabelling.png'.
[100%] Built target axon-sphinx
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:43,917::INFO::Pipeline 'morphologist.capsul.spmnormalization.SPMNormalization' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.spmnormalization.SPMNormalization.png'.
[100%] Create "share/doc/5.2"
[100%] Built target axon-devdoc
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:44,057::INFO::Pipeline 'morphologist.capsul.axon.brainorientation.BrainOrientation' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.brainorientation.BrainOrientation.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:44,147::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'.
Process2 execution, a: 0.000000, b: blop
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:44,227::INFO::Pipeline 'morphologist.capsul.fslnormalization.FSLnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.fslnormalization.FSLnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:44,334::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::2025-07-04 07:22:44,406::INFO::Pipeline 'morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:44,487::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::2025-07-04 07:22:44,487::INFO::Summary: '14' files written for module 'capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:44,849::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_view.py::2025-07-04 07:22:44,908::INFO::Pipeline 'morphologist.capsul.fslnormalization.FSLnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.fslnormalization.FSLnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,012::INFO::Pipeline 'morphologist.capsul.axon.brainorientation.BrainOrientation' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.brainorientation.BrainOrientation.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:45,025::INFO::Found '14' pipeline(s) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:45,025::INFO::Found '40' process(es) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:45,025::INFO::Processing pipeline 'morphologist.capsul.axon.axonmorphologist.AxonMorphologist'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,113::INFO::Pipeline 'morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,205::INFO::Pipeline 'morphologist.capsul.spmnormalization.SPMNormalization' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.spmnormalization.SPMNormalization.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,291::INFO::Pipeline 'morphologist.capsul.axon.sulcilabelling.SulciLabelling' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.sulcilabelling.SulciLabelling.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,387::INFO::Pipeline 'morphologist.capsul.spmnormalization.SPMnormalizationPipeline' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.spmnormalization.SPMnormalizationPipeline.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,464::INFO::Pipeline 'morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM' representation has been written at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/schema/morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM.png'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:45,464::INFO::Summary: '14' files written for module 'capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:46,029::INFO::Found '14' pipeline(s) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:46,029::INFO::Found '40' process(es) in 'morphologist.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:46,029::INFO::Processing pipeline 'morphologist.capsul.axon.axonmorphologist.AxonMorphologist'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_view.py::2025-07-04 07:22:47,061::INFO::Found '0' pipeline(s) in 'deepsulci.pattern_classification.capsul'.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,421::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,426::INFO::Processing pipeline 'morphologist.capsul.axon.brainorientation.BrainOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,477::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,484::INFO::Processing pipeline 'morphologist.capsul.axon.normalization.Normalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,520::INFO::Processing pipeline 'morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,568::INFO::Processing pipeline 'morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,578::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabelling.SulciLabelling'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,599::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,610::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,618::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:47,625::INFO::Processing pipeline 'morphologist.capsul.morphologist.Morphologist'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,240::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationpipeline.BaladinNormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,245::INFO::Processing pipeline 'morphologist.capsul.axon.brainorientation.BrainOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,278::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,290::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,296::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,300::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::2025-07-04 07:22:48,300::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::2025-07-04 07:22:48,300::INFO::Processing pipeline 'morphologist.capsul.axon.acpcorientation.AcpcOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,301::INFO::Processing pipeline 'morphologist.capsul.axon.aimsconverter.AimsConverter'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,302::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationtoaims.BaladinNormalizationToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,302::INFO::Processing pipeline 'morphologist.capsul.axon.brainsegmentation.BrainSegmentation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,303::INFO::Processing pipeline 'morphologist.capsul.axon.normalization.Normalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,303::INFO::Processing pipeline 'morphologist.capsul.axon.brainvolumes.brainvolumes'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,304::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationtoaims.FSLnormalizationToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,305::INFO::Processing pipeline 'morphologist.capsul.axon.greywhiteclassificationhemi.GreyWhiteClassificationHemi'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,305::INFO::Processing pipeline 'morphologist.capsul.axon.greywhitemesh.GreyWhiteMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,306::INFO::Processing pipeline 'morphologist.capsul.axon.greywhitetopology.GreyWhiteTopology'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,306::INFO::Processing pipeline 'morphologist.capsul.axon.histoanalysis.HistoAnalysis'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,307::INFO::Processing pipeline 'morphologist.capsul.axon.importt1mri.ImportT1MRI'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,307::INFO::Processing pipeline 'morphologist.capsul.axon.morpho_report.morpho_report'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,308::INFO::Processing pipeline 'morphologist.capsul.axon.morphologistprocess.morphologistProcess'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,312::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_aimsmiregister.normalization_aimsmiregister'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,313::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_baladin.Normalization_Baladin'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,313::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_fsl_reinit.Normalization_FSL_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,314::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_spm_reinit.Normalization_SPM_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,315::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::2025-07-04 07:22:48,315::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::2025-07-04 07:22:48,316::INFO::Processing pipeline 'morphologist.capsul.axon.pialmesh.PialMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,316::INFO::Processing pipeline 'morphologist.capsul.axon.reorientanatomy.ReorientAnatomy'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,317::INFO::Processing pipeline 'morphologist.capsul.axon.scalpmesh.ScalpMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,318::INFO::Processing pipeline 'morphologist.capsul.axon.skullstripping.skullstripping'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,318::INFO::Processing pipeline 'morphologist.capsul.axon.splitbrain.SplitBrain'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,319::INFO::Processing pipeline 'morphologist.capsul.axon.spmsn3dtoaims.SPMsn3dToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,319::INFO::Processing pipeline 'morphologist.capsul.axon.sulcigraph.SulciGraph'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,320::INFO::Processing pipeline 'morphologist.capsul.axon.sulcigraphmorphometrybysubject.sulcigraphmorphometrybysubject'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,321::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingann.SulciLabellingANN'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,321::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspamglobal.SulciLabellingSPAMGlobal'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,322::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspamlocal.SulciLabellingSPAMLocal'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,323::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspammarkov.SulciLabellingSPAMMarkov'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,324::INFO::Processing pipeline 'morphologist.capsul.axon.sulciskeleton.SulciSkeleton'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,324::INFO::Processing pipeline 'morphologist.capsul.axon.t1biascorrection.T1BiasCorrection'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,325::INFO::Processing pipeline 'morphologist.capsul.axon.talairachtransformation.TalairachTransformation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,326::INFO::Processing pipeline 'morphologist.capsul.axon.talairachtransformationfromnormalization.TalairachTransformationFromNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,326::INFO::Processing pipeline 'morphologist.capsul.import_t1_mri.ImportT1Mri'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,327::INFO::Processing pipeline 'morphologist.capsul.morphologist_simple.MorphologistSimple'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,331::INFO::Processing pipeline 'morphologist.capsul.morphologist_viewer.MorphologistView'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,332::INFO::Processing pipeline 'morphologist.capsul.sulci_manip.graph_pointcloud_label.GraphPointCloudLabel'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,332::INFO::Processing pipeline 'morphologist.capsul.talairachtransformationfromnormalization.TalairachTransformationFromNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,333::INFO::Writing index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/process/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,333::INFO::process: '40' files written for module 'capsul' at location /casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/process.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,333::INFO::Writing module 'capsul' index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/user_doc/process_docs/morphologist/capsul/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,333::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.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,340::INFO::Processing pipeline 'morphologist.capsul.axon.normalizationskullstripped.NormalizationSkullStripped'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,387::INFO::Processing pipeline 'morphologist.capsul.axon.spmnormalizationpipeline.SPMnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,397::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabelling.SulciLabelling'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,419::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingspam.SulciLabellingSPAM'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,430::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,438::INFO::Processing pipeline 'morphologist.capsul.fslnormalization.FSLnormalizationPipeline'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:48,445::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... /casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,120::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMNormalization'...
done
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,132::INFO::Processing pipeline 'morphologist.capsul.spmnormalization.SPMnormalizationPipeline'...
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...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,142::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::2025-07-04 07:22:49,142::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.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,143::INFO::Processing pipeline 'morphologist.capsul.axon.acpcorientation.AcpcOrientation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,144::INFO::Processing pipeline 'morphologist.capsul.axon.aimsconverter.AimsConverter'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,144::INFO::Processing pipeline 'morphologist.capsul.axon.baladinnormalizationtoaims.BaladinNormalizationToAims'...
loading intersphinx inventory from /casa/host/build/share/doc/pyanatomist-5.2/sphinx/objects.inv...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,145::INFO::Processing pipeline 'morphologist.capsul.axon.brainsegmentation.BrainSegmentation'...
loading intersphinx inventory from /casa/host/build/share/doc/soma-workflow-3.3/sphinx/objects.inv...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,146::INFO::Processing pipeline 'morphologist.capsul.axon.brainvolumes.brainvolumes'...
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'
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,147::INFO::Processing pipeline 'morphologist.capsul.axon.fslnormalizationtoaims.FSLnormalizationToAims'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,147::INFO::Processing pipeline 'morphologist.capsul.axon.greywhiteclassificationhemi.GreyWhiteClassificationHemi'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,148::INFO::Processing pipeline 'morphologist.capsul.axon.greywhitemesh.GreyWhiteMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,148::INFO::Processing pipeline 'morphologist.capsul.axon.greywhitetopology.GreyWhiteTopology'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,149::INFO::Processing pipeline 'morphologist.capsul.axon.histoanalysis.HistoAnalysis'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,149::INFO::Processing pipeline 'morphologist.capsul.axon.importt1mri.ImportT1MRI'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,150::INFO::Processing pipeline 'morphologist.capsul.axon.morpho_report.morpho_report'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,151::INFO::Processing pipeline 'morphologist.capsul.axon.morphologistprocess.morphologistProcess'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,155::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_aimsmiregister.normalization_aimsmiregister'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,155::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_baladin.Normalization_Baladin'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,156::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_fsl_reinit.Normalization_FSL_reinit'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,156::INFO::Processing pipeline 'morphologist.capsul.axon.normalization_spm_reinit.Normalization_SPM_reinit'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,158::INFO::Processing pipeline 'morphologist.capsul.axon.pialmesh.PialMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,159::INFO::Processing pipeline 'morphologist.capsul.axon.reorientanatomy.ReorientAnatomy'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,159::INFO::Processing pipeline 'morphologist.capsul.axon.scalpmesh.ScalpMesh'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,160::INFO::Processing pipeline 'morphologist.capsul.axon.skullstripping.skullstripping'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,161::INFO::Processing pipeline 'morphologist.capsul.axon.splitbrain.SplitBrain'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,161::INFO::Processing pipeline 'morphologist.capsul.axon.spmsn3dtoaims.SPMsn3dToAims'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,163::INFO::Processing pipeline 'morphologist.capsul.axon.sulcilabellingann.SulciLabellingANN'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,168::INFO::Processing pipeline 'morphologist.capsul.axon.talairachtransformation.TalairachTransformation'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,168::INFO::Processing pipeline 'morphologist.capsul.axon.talairachtransformationfromnormalization.TalairachTransformationFromNormalization'...
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/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,169::INFO::Processing pipeline 'morphologist.capsul.morphologist_simple.MorphologistSimple'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,174::INFO::Processing pipeline 'morphologist.capsul.morphologist_viewer.MorphologistView'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,174::INFO::Processing pipeline 'morphologist.capsul.sulci_manip.graph_pointcloud_label.GraphPointCloudLabel'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,175::INFO::Processing pipeline 'morphologist.capsul.talairachtransformationfromnormalization.TalairachTransformationFromNormalization'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,175::INFO::Writing index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/process/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,176::INFO::process: '40' files written for module 'capsul' at location /casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/process.
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,176::INFO::Writing module 'capsul' index at location '/casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul/index.rst'...
/casa/host/src/capsul/master/capsul/sphinxext/capsul_pipeline_rst.py::2025-07-04 07:22:49,176::INFO::Index: an index has been written for module 'capsul' at location /casa/host/src/morphologist/morphologist-gpl/master/sphinx/dev_doc/process_docs/morphologist/capsul.
[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
building [mo]: targets for 0 po files that are out of date
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reading sources... [ 10%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.axon.fslnormalizationpipeline.FSLnormalizationPipeline
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
loading intersphinx inventory from /casa/host/build/share/doc/soma-base-5.3/sphinx/objects.inv...
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[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
reading sources... [ 36%] process_docs/morphologist/capsul/process/morphologist.capsul.axon.brainsegmentation.BrainSegmentation
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reading sources... [ 22%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.fslnormalization.FSLnormalizationPipeline
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reading sources... [ 98%] process_docs/morphologist/capsul/process/morphologist.capsul.sulci_manip.graph_pointcloud_label.GraphPointCloudLabel
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reading sources... [ 26%] process_docs/morphologist/capsul/pipeline/morphologist.capsul.spmnormalization.SPMNormalization

/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
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/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.attributes_to_path:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.attributes_to_path, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.complete_parameters:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.complete_parameters, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.get_attribute_values:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.get_attribute_values, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.get_completion_engine:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.get_completion_engine, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.get_path_completion_engine:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.get_path_completion_engine, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.install_auto_completion:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.install_auto_completion, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.remove_auto_completion:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.remove_auto_completion, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/completion_engine.py:docstring of capsul.attributes.completion_engine.ProcessCompletionEngine.set_parameters:1: WARNING: duplicate object description of capsul.attributes.completion_engine.ProcessCompletionEngine.set_parameters, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/attributes/fom_completion_engine.py:docstring of capsul.attributes.fom_completion_engine.FomProcessCompletionEngine.create_attributes_with_fom:1: WARNING: duplicate object description of capsul.attributes.fom_completion_engine.FomProcessCompletionEngine.create_attributes_with_fom, other instance in api/attributes, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/engine/__init__.py:docstring of capsul.engine.AutoDeleteFileName:9: WARNING: Inline strong start-string without end-string.
/casa/host/src/capsul/master/capsul/engine/__init__.py:docstring of capsul.engine.AutoDeleteFileName:18: WARNING: Inline strong start-string without end-string.
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.Node.connect:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.Node.connect, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.Node.get_plug_value:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.Node.get_plug_value, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.Node.get_trait:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.Node.get_trait, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.Node.set_callback_on_plug:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.Node.set_callback_on_plug, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.Node.set_plug_value:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.Node.set_plug_value, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.ProcessNode.check_requirements:6: ERROR: Unknown directive type "see".

.. see:: :meth:`capsul.process.process.check_requirements`
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.ProcessNode.get_plug_value:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.ProcessNode.get_plug_value, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.ProcessNode.get_trait:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.ProcessNode.get_trait, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.ProcessNode.set_callback_on_plug:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.ProcessNode.set_callback_on_plug, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_nodes.py:docstring of capsul.pipeline.pipeline_nodes.ProcessNode.set_plug_value:1: WARNING: duplicate object description of capsul.pipeline.pipeline_nodes.ProcessNode.set_plug_value, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/pipeline_tools.py:docstring of capsul.pipeline.pipeline_tools.write_fake_pipeline:8: ERROR: Unknown interpreted text role "warning".
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.Graph.add_link:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.Graph.add_link, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.Graph.add_node:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.Graph.add_node, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.Graph.find_node:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.Graph.find_node, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.Graph.topological_sort:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.Graph.topological_sort, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.GraphNode.add_link_from:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.GraphNode.add_link_from, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.GraphNode.add_link_to:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.GraphNode.add_link_to, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.GraphNode.remove_link_from:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.GraphNode.remove_link_from, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/pipeline/topological_sort.py:docstring of capsul.pipeline.topological_sort.GraphNode.remove_link_to:1: WARNING: duplicate object description of capsul.pipeline.topological_sort.GraphNode.remove_link_to, other instance in api/pipeline, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/process/process.py:docstring of capsul.process.process.NipypeProcess:32: WARNING: Bullet list ends without a blank line; unexpected unindent.
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.add_embedded_subpipeline:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.add_embedded_subpipeline, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.auto_dot_node_positions:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.auto_dot_node_positions, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.colored_parameters:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.colored_parameters, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.is_logical_view:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.is_logical_view, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.link_right_clicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.link_right_clicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.node_clicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.node_clicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.node_clicked_ctrl:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.node_clicked_ctrl, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.node_right_clicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.node_right_clicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.onLoadSubPipelineClicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.onLoadSubPipelineClicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.onOpenProcessController:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.onOpenProcessController, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.plug_clicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.plug_clicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.plug_right_clicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.plug_right_clicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.reset_initial_nodes_positions:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.reset_initial_nodes_positions, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.save_dot_image_ui:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.save_dot_image_ui, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.scene:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.scene, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.set_logical_view:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.set_logical_view, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.set_pipeline:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.set_pipeline, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.subpipeline_clicked:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.subpipeline_clicked, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.window:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.window, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.zoom_in:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.zoom_in, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/qt_gui/widgets/pipeline_developer_view.py:docstring of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.zoom_out:1: WARNING: duplicate object description of capsul.qt_gui.widgets.pipeline_developer_view.PipelineDeveloperView.zoom_out, other instance in api/qt_gui, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/memory.py:docstring of capsul.study_config.memory.Memory.cache:1: WARNING: duplicate object description of capsul.study_config.memory.Memory.cache, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/memory.py:docstring of capsul.study_config.memory.Memory.clear:1: WARNING: duplicate object description of capsul.study_config.memory.Memory.clear, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.get_trait:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.get_trait, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.get_trait_value:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.get_trait_value, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.reset_process_counter:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.reset_process_counter, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.run:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.run, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.set_study_configuration:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.set_study_configuration, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.set_trait_value:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.set_trait_value, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/study_config.py:docstring of capsul.study_config.study_config.StudyConfig.update_study_configuration:1: WARNING: duplicate object description of capsul.study_config.study_config.StudyConfig.update_study_configuration, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/config_modules/somaworkflow_config.py:docstring of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.connect_resource:1: WARNING: duplicate object description of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.connect_resource, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/config_modules/somaworkflow_config.py:docstring of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.disconnect_resource:1: WARNING: duplicate object description of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.disconnect_resource, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/config_modules/somaworkflow_config.py:docstring of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.get_resource_id:1: WARNING: duplicate object description of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.get_resource_id, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/config_modules/somaworkflow_config.py:docstring of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.get_workflow_controller:1: WARNING: duplicate object description of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.get_workflow_controller, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/capsul/study_config/config_modules/somaworkflow_config.py:docstring of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.set_computing_resource_password:1: WARNING: duplicate object description of capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig.set_computing_resource_password, other instance in api/study_config, use :noindex: for one of them
/casa/host/src/capsul/master/doc/source/tutorial/capsul_tutorial.ipynb:1697: ERROR: Duplicate substitution definition name: "xml pipeline".
/casa/host/src/capsul/master/doc/source/tutorial/capsul_tutorial.ipynb:1698: ERROR: Duplicate substitution definition name: "xml pipeline controller".
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build succeeded, 69 warnings.

The HTML pages are in ../../share/doc/capsul-2.6.
[100%] Built target capsul-sphinx
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Generating BrainVISA processes documentation
[100%] Built target bv_ontology_doc
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[100%] Built target doc

bv_maker summary:
OK          step doc: /casa/host/build, started: 2025/07/04 07:22, stopped: 2025/07/04 07:25
All went good.

Finished: SUCCESS