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FCP-INDI / C-PAC

Configurable Pipeline for the Analysis of Connectomes
https://fcp-indi.github.io/
GNU Lesser General Public License v3.0
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Key error when I toggle run* fields in pipeline config #889

Open dowd-a opened 5 years ago

dowd-a commented 5 years ago

I've been trying to configure the pipeline to only run specific types of processing (anatomical only, preprocessing only, no nuisance regression, etc.). When I just set all the run* fields (runALFF, runBBReg, runEPI_DistCorr, etc.) in the pipeline config file to [0], I get this key error.

181204-16:20:05,502 nipype.workflow INFO: Selected Slice Timing pattern ['Use NIFTI Header'] 181204-16:20:05,514 nipype.workflow INFO: finished connecting slice timing pattern No handlers could be found for logger "workflow" Traceback (most recent call last): File "/code/run.py", line 392, in plugin='MultiProc', plugin_args=plugin_args) File "/code/CPAC/pipeline/cpac_runner.py", line 487, in run p_name, plugin, plugin_args) File "/code/CPAC/pipeline/cpac_pipeline.py", line 3354, in prep_workflow create_qc_workflow(workflow, c, strat_list, Outputs.qc) File "/code/CPAC/qc/pipeline.py", line 46, in create_qc_workflow func_to_anat_xfm, xfm_file = strat['functional_to_anat_linear_xfm'] File "/code/CPAC/utils/strategy.py", line 57, in getitem return self.resource_pool[resource_key] KeyError: 'functional_to_anat_linear_xfm'

sgiavasis commented 5 years ago

Hi @dowd-a ,

This looks to be a simple case of rigidity in the pipeline building, similar to the issues with running anat only. I'm going to push these fixes into this release. Thanks for all of the testing so far.

Steve

dowd-a commented 5 years ago

Okay, thanks for looking into it.