Started Running as brainvisa ================================================================================ ---------------------------------------- $ /usr/bin/python3 /volatile/a-sac-ns-brainvisa/bbi_nightly/cea-master-5.3/src/development/casa-distro/master/bin/casa_distro run name=cea-5.1-5.3-userimage env=BRAINVISA_TEST_RUN_DATA_DIR=/volatile/a-sac-ns-brainvisa/bbi_nightly/cea-5.1-5.3-userimage/tests/test,BRAINVISA_TEST_REF_DATA_DIR=/volatile/a-sac-ns-brainvisa/bbi_nightly/cea-5.1-5.3-userimage/tests/ref -- sh -c '/casa/install/bin/bv_env_test "timeout" "-k" "10" "1000.000000" "python" "-m" "capsul.test" "--verbose"' ---------------------------------------- test_completion (capsul.attributes.test.test_attributed_process.TestCompletion) ... ok test_iteration (capsul.attributes.test.test_attributed_process.TestCompletion) ... ok test_list_completion (capsul.attributes.test.test_attributed_process.TestCompletion) ... ok test_run_iteraton_sequential (capsul.attributes.test.test_attributed_process.TestCompletion) ... ok test_run_iteraton_swf (capsul.attributes.test.test_attributed_process.TestCompletion) ... soma-workflow starting in light mode :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() ok test_completion (capsul.attributes.test.test_fom_process.TestCompletion) ... Workflow controller initialised del WorkflowController ok test_iteration (capsul.attributes.test.test_fom_process.TestCompletion) ... ok test_list_completion (capsul.attributes.test.test_fom_process.TestCompletion) ... ok test_run_iteraton_sequential (capsul.attributes.test.test_fom_process.TestCompletion) ... ok test_run_iteraton_swf (capsul.attributes.test.test_fom_process.TestCompletion) ... ok test_engine_settings (capsul.engine.test.test_capsul_engine.TestCapsulEngine) ... ok test_fsl_config (capsul.engine.test.test_capsul_engine.TestCapsulEngine) ... ['/tmp/capsul_fslped46nr5/bin/fsl5.0-bet', 'nothing', 'nothing_else'] ok test_matlab_config (capsul.engine.test.test_capsul_engine.TestCapsulEngine) ... ok test_nipype_spm_config (capsul.engine.test.test_capsul_engine.TestCapsulEngine) ... /usr/local/lib/python3.10/dist-packages/nibabel/openers.py:16: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.version import StrictVersion :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() stty: 'standard input': Inappropriate ioctl for device ok test_python_config (capsul.engine.test.test_capsul_engine.TestCapsulEngine) ... ok test_full_desactivation (capsul.pipeline.test.test_activation.TestPipeline) ... ok test_partial_desactivation (capsul.pipeline.test.test_activation.TestPipeline) ... ok test_activations (capsul.pipeline.test.test_complex_pipeline_activations.TestComplexPipeline) ... :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() ok test_custom_nodes (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_custom_nodes_json_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_custom_nodes_py_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_custom_nodes_workflow (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_custom_nodes_xml_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_cv_json_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject0' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customaraxyace/file0' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject1' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customaraxyace/file1' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject2' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customaraxyace/file2' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject3' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customaraxyace/file3' was specified. ok test_cv_py_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject0' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customtwbbk0z6/file0' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject1' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customtwbbk0z6/file1' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject2' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customtwbbk0z6/file2' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject3' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customtwbbk0z6/file3' was specified. ok test_cv_xml_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject0' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customgzmtnlqo/file0' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject1' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customgzmtnlqo/file1' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject2' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customgzmtnlqo/file2' was specified. assign parameter subject : The 'subject' trait of a ProcessIteration instance must be a list of items which are a string, but a value of 'subject3' was specified. assign parameter out1 : The 'out1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '' was specified. assign parameter in1 : The 'in1' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/swf_customgzmtnlqo/file3' was specified. ok test_leave_one_out_pipeline (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_loo_json_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_loo_py_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_loo_xml_io (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_mapreduce (capsul.pipeline.test.test_custom_nodes.TestCustomNodes) ... ok test_way1 (capsul.pipeline.test.test_double_switch.TestDoubleSwitchPipeline) ... ok test_way2 (capsul.pipeline.test.test_double_switch.TestDoubleSwitchPipeline) ... ok test_iterative_big_pipeline_workflow (capsul.pipeline.test.test_iterative_process.TestPipeline) ... assign parameter input_image : The 'input_image' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of 'tutu' was specified. assign parameter other_output : The 'other_output' trait of a ProcessIteration instance must be a list of items which are a float, but a value of 2.1 was specified. assign parameter output_image : The 'output_image' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/capsul_test9zama1be/tutu_out' was specified. assign parameter dynamic_parameter : The 'dynamic_parameter' trait of a ProcessIteration instance must be a list of items which are a float, but a value of 2.0 was specified. assign parameter input_image : The 'input_image' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of 'tete' was specified. assign parameter other_output : The 'other_output' trait of a ProcessIteration instance must be a list of items which are a float, but a value of 5.1 was specified. assign parameter output_image : The 'output_image' trait of a ProcessIteration instance must be a list of items which are a string or os.PathLike object, but a value of '/tmp/capsul_test9zama1be/tete_out' was specified. assign parameter dynamic_parameter : The 'dynamic_parameter' trait of a ProcessIteration instance must be a list of items which are a float, but a value of 5.0 was specified. ok test_iterative_pipeline_connection (capsul.pipeline.test.test_iterative_process.TestPipeline) Test if an iterative process works correctly ... ok test_iterative_pipeline_workflow (capsul.pipeline.test.test_iterative_process.TestPipeline) ... ok test_iterative_pipeline_workflow_run (capsul.pipeline.test.test_iterative_process.TestPipeline) ... ok test_json (capsul.pipeline.test.test_optional_output_switch.TestPipeline) ... :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() ok test_way1 (capsul.pipeline.test.test_optional_output_switch.TestPipeline) ... ok test_way2 (capsul.pipeline.test.test_optional_output_switch.TestPipeline) ... ok test_xml (capsul.pipeline.test.test_optional_output_switch.TestPipeline) ... ok test_constant (capsul.pipeline.test.test_pipeline.TestPipeline) ... ok test_enabled (capsul.pipeline.test.test_pipeline.TestPipeline) ... ok test_pipeline_io_py (capsul.pipeline.test.test_pipeline.TestPipeline) ... ok test_pipeline_json (capsul.pipeline.test.test_pipeline.TestPipeline) ... ok test_pipeline_xml (capsul.pipeline.test.test_pipeline.TestPipeline) ... ok test_run_pipeline (capsul.pipeline.test.test_pipeline.TestPipeline) ... ok test_date_time (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... /casa/install/python/soma/controller/controller.py:330: DeprecationWarning: In the future, None will no longer be accepted by this trait type. To allow None and silence this warning, use Date(allow_none=True). setattr(self, name, value) /casa/install/python/soma/controller/controller.py:330: DeprecationWarning: In the future, None will no longer be accepted by this trait type. To allow None and silence this warning, use Time(allow_none=True). setattr(self, name, value) /casa/install/python/capsul/pipeline/pipeline_tools.py:1275: DeprecationWarning: In the future, None will no longer be accepted by this trait type. To allow None and silence this warning, use Date(allow_none=True). setattr(pipeline, trait_name, None) /casa/install/python/capsul/pipeline/pipeline_tools.py:1275: DeprecationWarning: In the future, None will no longer be accepted by this trait type. To allow None and silence this warning, use Time(allow_none=True). setattr(pipeline, trait_name, None) ok test_file (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_float (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_int (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_list_file (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_list_float (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_list_int (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_list_list (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_list_string (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_string (capsul.pipeline.test.test_pipeline_parameters.TestPipelineMethods) ... ok test_iterative_pipeline_with_temp (capsul.pipeline.test.test_pipeline_with_temp.TestPipelineWithTemp) ... ok test_pipeline_with_temp (capsul.pipeline.test.test_pipeline_with_temp.TestPipelineWithTemp) ... ok test_full_wf (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_iter_workflow (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_iter_workflow_without_temp (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_partial_wf1 (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_partial_wf2 (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_partial_wf3_fail (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_requirements (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_wf_run (capsul.pipeline.test.test_pipeline_workflow.TestPipelineWorkflow) ... ok test_direct_run (capsul.pipeline.test.test_proc_with_outputs.TestPipelineContainingProcessWithOutputs) ... Exception in thread Thread-7: Traceback (most recent call last): File "/casa/install/python/soma_workflow/database_server.py", line 619, in _connect connection = sqlite3.connect( sqlite3.OperationalError: unable to open database file During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3.10/threading.py", line 1016, in _bootstrap_inner self.run() File "/casa/install/python/soma_workflow/engine.py", line 102, in run self.engine_loop.start_loop(self.time_interval) File "/casa/install/python/soma_workflow/engine.py", line 269, in start_loop = self._database_server.jobs_to_delete_and_kill( File "/casa/install/python/soma_workflow/database_server.py", line 3752, in jobs_to_delete_and_kill connection = self._connect() File "/casa/install/python/soma_workflow/database_server.py", line 629, in _connect six.reraise(DatabaseError, File "/usr/lib/python3/dist-packages/six.py", line 718, in reraise raise value.with_traceback(tb) File "/casa/install/python/soma_workflow/database_server.py", line 619, in _connect connection = sqlite3.connect( soma_workflow.errors.DatabaseError: On database file /tmp/tmp_w435_o0/soma-workflow.db: : unable to open database file Exception in thread Thread-8: Traceback (most recent call last): File "/casa/install/python/soma_workflow/database_server.py", line 619, in _connect connection = sqlite3.connect( sqlite3.OperationalError: unable to open database file During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3.10/threading.py", line 1016, in _bootstrap_inner self.run() File "/casa/install/python/soma_workflow/engine.py", line 102, in run self.engine_loop.start_loop(self.time_interval) File "/casa/install/python/soma_workflow/engine.py", line 269, in start_loop = self._database_server.jobs_to_delete_and_kill( File "/casa/install/python/soma_workflow/database_server.py", line 3752, in jobs_to_delete_and_kill connection = self._connect() File "/casa/install/python/soma_workflow/database_server.py", line 629, in _connect six.reraise(DatabaseError, File "/usr/lib/python3/dist-packages/six.py", line 718, in reraise raise value.with_traceback(tb) File "/casa/install/python/soma_workflow/database_server.py", line 619, in _connect connection = sqlite3.connect( soma_workflow.errors.DatabaseError: On database file /tmp/tmp_w435_o0/soma-workflow.db: : unable to open database file ok test_direct_run_sub_iter (capsul.pipeline.test.test_proc_with_outputs.TestPipelineContainingProcessWithOutputs) ... ok test_direct_run_subpipeline (capsul.pipeline.test.test_proc_with_outputs.TestPipelineContainingProcessWithOutputs) ... ok test_direct_run_switch (capsul.pipeline.test.test_proc_with_outputs.TestPipelineContainingProcessWithOutputs) ... ok test_full_wf (capsul.pipeline.test.test_proc_with_outputs.TestPipelineContainingProcessWithOutputs) ... ok test_full_wf_switch (capsul.pipeline.test.test_proc_with_outputs.TestPipelineContainingProcessWithOutputs) ... ok test_iterative_pipeline_connection (capsul.pipeline.test.test_process_iteration.TestPipeline) Method to test if an iterative node and built in iterative ... ok test_qc_active (capsul.pipeline.test.test_qc_nodes.TestQCNodes) Method to test if the run qc option works properly. ... ok test_qc_inactive (capsul.pipeline.test.test_qc_nodes.TestQCNodes) Method to test if the run qc option works properly. ... ok test_way1 (capsul.pipeline.test.test_switch_optional_output.TestPipeline) ... ok test_way2 (capsul.pipeline.test.test_switch_optional_output.TestPipeline) ... ok test_hard (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_io (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() ok test_parameter_propagation (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_way1 (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_way2 (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_way3 (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_weak_off (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_weak_on (capsul.pipeline.test.test_switch_pipeline.TestSwitchPipeline) ... ok test_self_state (capsul.pipeline.test.test_switch_subpipeline.TestSwitchPipeline) ... ok test_switch_value (capsul.pipeline.test.test_switch_subpipeline.TestSwitchPipeline) ... ok test_direct_run (capsul.pipeline.test.test_temporary.TestTemporary) ... ok test_full_wf (capsul.pipeline.test.test_temporary.TestTemporary) ... ok test_structure (capsul.pipeline.test.test_temporary.TestTemporary) ... ok test_named_outputs (capsul.process.test.test_load_from_description.TestLoadFromDescription) ... ok test_pipeline_warping (capsul.process.test.test_load_from_description.TestLoadFromDescription) Method to test the xml description to pipeline on the fly warping. ... :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() ok test_pipeline_writing (capsul.process.test.test_load_from_description.TestLoadFromDescription) Method to test the xml description saving and reloading ... ok test_process_warping (capsul.process.test.test_load_from_description.TestLoadFromDescription) Method to test the function to process on the fly warping. ... ok test_return_list (capsul.process.test.test_load_from_description.TestLoadFromDescription) ... ok test_return_string (capsul.process.test.test_load_from_description.TestLoadFromDescription) ... ok test_process_wrap (capsul.process.test.test_load_from_description.TestProcessWrap) Method to test if the process has been wrapped properly. ... ok test_nipype_automatic_wrap (capsul.process.test.test_nipype_wrap.TestNipypeWrap) Method to test if the automatic nipype interfaces wrap work ... ok test_nipype_monkey_patching (capsul.process.test.test_nipype_wrap.TestNipypeWrap) Method to test the monkey patching used to work in user ... ok test_help (capsul.process.test.test_runprocess.TestRunProcess) ... ok test_python_m_capsul (capsul.process.test.test_runprocess.TestRunProcess) ... ok test_run_dummy_process (capsul.process.test.test_runprocess.TestRunProcess) ... ok test_run_dummy_process_wrong_args (capsul.process.test.test_runprocess.TestRunProcess) ... ok test_run_process_help (capsul.process.test.test_runprocess.TestRunProcess) ... ok test_class_user_parameters (capsul.process.test.test_traits.TestProcessUserTrait) Method to test if class user parameters are not shared at ... ok test_pipeline_doc (capsul.sphinxext.test.test_process_pipeline_doc.TestSphinxExt) Method to test the pipeline rst documentation. ... ok test_process_doc (capsul.sphinxext.test.test_process_pipeline_doc.TestSphinxExt) Method to test the process rst documentation. ... ok test_use_cases_doc (capsul.sphinxext.test.test_usercases_doc.TestUseCases) Method to test the use cases rst documentation. ... ok test_study_config_fsl (capsul.study_config.test.test_fsl_config.TestFSL) ... WARNING: Skip FSL test because it cannot be configured automatically: FSL command "bet" cannot be found in PATH ok test_proxy_process_copy (capsul.study_config.test.test_memory.TestMemory) Test memory with copy. ... ok test_proxy_process_with_cache (capsul.study_config.test.test_memory.TestMemory) Test the proxy process behaviours with cache. ... ok test_proxy_process_without_cache (capsul.study_config.test.test_memory.TestMemory) Test the proxy process behaviours without cache. ... ok test_execution_with_cache (capsul.study_config.test.test_run_in_study_config.TestRunProcess) Execute a process with cache. ... ok test_execution_without_cache (capsul.study_config.test.test_run_in_study_config.TestRunProcess) Execute a process without cache. ... ok test_execution_with_cache (capsul.study_config.test.test_run_process.TestRunProcess) Execute a process with cache. ... soma-workflow starting in light mode Workflow controller initialised del WorkflowController soma-workflow starting in light mode Workflow controller initialised del WorkflowController soma-workflow starting in light mode Workflow controller initialised del WorkflowController soma-workflow starting in light mode Workflow controller initialised del WorkflowController run: /tmp/capsul_test773ne4np/toto -> define output_image: /tmp/capsul_test773ne4np/toto-5.0-3.0 run: /tmp/capsul_test773ne4np/tutu -> define output_image: /tmp/capsul_test773ne4np/tutu-5.0-1.0 * running pipeline... soma-workflow starting in light mode Workflow controller initialised * finished. cache_dir: /tmp/__pycache__ added py tmpfile: /tmp/test_pipelinedno3osmj.py /tmp/__pycache__/test_pipelinedno3osmj.cpython-310.pyc DummyProcess : /tmp/tmp6pmvf_t7capsul_input.txt -> /tmp/tmprf44vbxbcapsul DummyProcess : /tmp/tmp6pmvf_t7capsul_input.txt -> /tmp/tmpi5w8ezzscapsul DummyProcess : /tmp/tmp6pmvf_t7capsul_input.txt -> /tmp/tmpv2umhrtxcapsul cat ['/tmp/tmprf44vbxbcapsul', '/tmp/tmpi5w8ezzscapsul', '/tmp/tmpv2umhrtxcapsul'] to: /tmp/tmpq7_auqa4capsul_output.txt DummyProcess : /tmp/tmpt60ychc1capsul_input.txt -> /tmp/tmp18e6j281capsul DummyProcess : /tmp/tmp18e6j281capsul -> /tmp/tmpwee4599mcapsul_output.txt soma-workflow starting in light mode Workflow controller initialised execution started WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/file_out1 doesn't exist on the computing resource side. WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/file_out1.minf doesn't exist on the computing resource side. WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/file_out2 doesn't exist on the computing resource side. WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/file_out2.minf doesn't exist on the computing resource side. WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/file_out3 doesn't exist on the computing resource side. WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/file_out3.minf doesn't exist on the computing resource side. finished: workflow_done soma-workflow starting in light mode Workflow controller initialised execution started WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/1_dir/file_out doesn't exist on the computing resource side. WARNING: The file or directory /tmp/tmp_w435_o0/transfered_files/a-sac-ns-brainvisa_1/1_dir/file_out.minf doesn't exist on the computing resource side. finished: workflow_done transfered output path: /tmp/tmpo8gfirld/file_out2.nii from: node3.output changes to input. transfered output path: /tmp/tmp4304x1wm/file_out1.nii from: node2.output changes to input. temp path in: node1.output will not be produced. soma-workflow starting in light mode Workflow controller initialised execution started finished: workflow_done del WorkflowController del WorkflowController del WorkflowController del WorkflowController soma-workflow starting in light mode Workflow controller initialised del WorkflowController soma-workflow starting in light mode Workflow controller initialised soma-workflow starting in light mode Workflow controller initialised ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_memory.DummyCopyProcess... capsul.study_config.test.test_memory.DummyCopyProcess(f=2.5, i=/casa/install/python/capsul/study_config/test/test_memory.py, l=['/casa/install/python/capsul/study_config/test/test_memory.py']) ____________________________________________________________________0.0s, 0.0min proxy_process: machin: {'i': '/tmp/tmpbblp9g23/test_memory.py', 'l': ['/tmp/tmpbblp9g23/test_memory.py'], 'f': 2.5} ________________________________________________________________________________ [Memory] Calling capsul.study_config.test.test_memory.DummyProcess... capsul.study_config.test.test_memory.DummyProcess(f=1.0, ff=2.3) ____________________________________________________________________0.0s, 0.0min ________________________________________________________________________________ [Memory] Calling capsul.study_config.test.test_memory.DummyProcess... capsul.study_config.test.test_memory.DummyProcess(f=2.0, ff=2.0) ____________________________________________________________________0.0s, 0.0min [Memory]: Loading capsul.study_config.test.test_memory.DummyProcess(f=1.0, ff=2.3)... ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_memory.DummyProcess... capsul.study_config.test.test_memory.DummyProcess(f=1.0, ff=2.3) ____________________________________________________________________0.0s, 0.0min ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_memory.DummyProcess... capsul.study_config.test.test_memory.DummyProcess(f=2.0, ff=2.0) ____________________________________________________________________0.0s, 0.0min ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_memory.DummyProcess... capsul.study_config.test.test_memory.DummyProcess(f=1.0, ff=2.3) ____________________________________________________________________0.0s, 0.0min ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmp40h6wjhv) ________________________________________________________________________________ [Memory] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmp40h6wjhv) ____________________________________________________________________0.0s, 0.0min ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=2.0, f2=2.0, output_directory=/tmp/tmp40h6wjhv) ________________________________________________________________________________ [Memory] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=2.0, f2=2.0, output_directory=/tmp/tmp40h6wjhv) ____________________________________________________________________0.0s, 0.0min ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmp40h6wjhv) [Memory]: Loading capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmp40h6wjhv)... ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmpzen8nrpt) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=2.0, f2=2.0, output_directory=/tmp/tmpzen8nrpt) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_in_study_config.DummyProcess... capsul.study_config.test.test_run_in_study_config.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmpzen8nrpt) ok test_execution_without_cache (capsul.study_config.test.test_run_process.TestRunProcess) Execute a process without cache. ... ok test_missing_parameters (capsul.study_config.test.test_run_process.TestRunProcess) Test if missing mandatory parameters raise the appropriate error ... ok test_atomic_dependencies (capsul.study_config.test.test_soma_workflow.TestSomaWorkflow) ... ok test_atomic_execution (capsul.study_config.test.test_soma_workflow.TestSomaWorkflow) ... ok test_composite_dependencies (capsul.study_config.test.test_soma_workflow.TestSomaWorkflow) ... ok test_composite_execution (capsul.study_config.test.test_soma_workflow.TestSomaWorkflow) ... ok test_atomic_dependencies (capsul.study_config.test.test_soma_workflow_with_kw.TestSomaWorkflow) ... ok test_atomic_execution (capsul.study_config.test.test_soma_workflow_with_kw.TestSomaWorkflow) ... ok test_atomic_execution_kwparams (capsul.study_config.test.test_soma_workflow_with_kw.TestSomaWorkflow) ... ok test_composite_dependencies (capsul.study_config.test.test_soma_workflow_with_kw.TestSomaWorkflow) ... ok test_composite_execution (capsul.study_config.test.test_soma_workflow_with_kw.TestSomaWorkflow) ... ok test_study_config_configuration (capsul.study_config.test.test_study_config_configuration.TestStudyConfigConfiguration) ... ok test_study_config_fom (capsul.study_config.test.test_study_config_fom.TestStudyConfigFOM) ... ok test_capsul_import (capsul.test.test_capsul_modules_import.TestCapsulModulesImport) ... ok test_capsul_pipeline_import (capsul.test.test_capsul_modules_import.TestCapsulModulesImport) ... ok test_capsul_pipeline_pipeline_workflow_import (capsul.test.test_capsul_modules_import.TestCapsulModulesImport) ... ok test_capsul_process_import (capsul.test.test_capsul_modules_import.TestCapsulModulesImport) ... ok test_capsul_studyconfig_import (capsul.test.test_capsul_modules_import.TestCapsulModulesImport) ... ok test_capsul_utils_import (capsul.test.test_capsul_modules_import.TestCapsulModulesImport) ... ok test_version_interfaces (capsul.utils.test.test_utils.TestUtils) Method to test if we can get the nipype interfaces versions. ... ok test_version_python (capsul.utils.test.test_utils.TestUtils) Method to test if we can get a python module version from ... :914: ImportWarning: QtImporter.find_spec() not found; falling back to find_module() ok ---------------------------------------------------------------------- Ran 137 tests in 173.322s OK ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_process.DummyProcess... capsul.study_config.test.test_run_process.DummyProcess(f1=0.0, f2=0.0, output_directory=/tmp/tmpljcqfkgs) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_process.DummyProcess... capsul.study_config.test.test_run_process.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmpljcqfkgs) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_process.DummyProcess... capsul.study_config.test.test_run_process.DummyProcess(f1=2.0, f2=2.0, output_directory=/tmp/tmpljcqfkgs) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_process.DummyProcess... capsul.study_config.test.test_run_process.DummyProcess(f1=0.0, f2=0.0, output_directory=/tmp/tmpwa_oed6k) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_process.DummyProcess... capsul.study_config.test.test_run_process.DummyProcess(f1=1.0, f2=2.3, output_directory=/tmp/tmpwa_oed6k) ________________________________________________________________________________ [Process] Calling capsul.study_config.test.test_run_process.DummyProcess... capsul.study_config.test.test_run_process.DummyProcess(f1=2.0, f2=2.0, output_directory=/tmp/tmpwa_oed6k) soma-workflow starting in light mode Workflow controller initialised del WorkflowController del WorkflowController del WorkflowController soma-workflow starting in light mode Workflow controller initialised soma-workflow starting in light mode Workflow controller initialised soma-workflow starting in light mode Workflow controller initialised del WorkflowController soma-workflow starting in light mode Workflow controller initialised del WorkflowController del WorkflowController del WorkflowController ================================================================================ SUCCESS (exit code 0) Finished: SUCCESS