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Workflows and interfaces for neuroimaging packages
Adds StdInCommandLine and EnvironmentInputCommandLine # What is this? I have implemented this for some custom Interfaces that I have had to create. They wrapped scripts that either took inputs as...
Fixes # . Changes proposed in this pull request - Workflow nodes that run on GPUs can be scheduled similar to that of CPU resources. The plugin args will now...
Running `sdc_fmb` where `in_file` and `bmap_mag` or `phase` are not close in coordinate space results in error running ants > Description: itk::ERROR: MattesMutualInformationImageToImageMetricv4(0x2600ad0): Too many samples map outside moving image...
This PR creates a new type of interface that wraps workflows into a nipype interface. A naive addendum has been done to the BaseWorkflow class, in order to post-process the...
fsl.MotionOutliers output spec no longer requires out_file to exist. fsl_motion_outliers does not create an output file when no timepoints are above the threshold, and in this situation fsl.MotionOutliers would throw...
Hello Nipype community, MacOS - 10.14.6 - Mojave nipype version 1.5.0-rc1 (latest: 1.4.2) Anaconda - Spyder Python 3.7.6 (my previous installation with Jupyterlab worked without the following error) I am...
### Summary I have followed the instruction here (http://nipype.readthedocs.io/en/latest/users/resource_sched_profiler.html) to monitor the resource of the each node, but I do not seem to be getting the profiles I need, namely...
### Summary Nipype still uses pydot for graph rendering: https://github.com/nipy/nipype/blob/bf48f7722f057a1eb2005390eb0a7ebcd35ee8bf/nipype/pipeline/engine/utils.py#L1381 This has lead to problems (https://github.com/nipreps/fmriprep/issues/2870) and is on its way out in networkx (https://github.com/networkx/networkx/issues/5723), and might just easily be...
### When I try to use ANTs **N4BiasFieldCorrection** , I get the following error > No command "N4BiasFieldCorrection" found on host ubuntu. Please check that the corresponding package is installed....
https://github.com/trungdong/prov hasn't been updated in a while and has no new releases since 2020... The test suite also seems broken. Is there any chance we could easily remove/replace this dependency?...
