mindboggle

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mindboggle input by default is looking for `MRImgh.inputs.template = '%s/mri/orig/001.mgz`' which by definition doesn't exist for data processed by the FreeSurfer longitudinal pipeline(v5.3). Unless there is some reason to use...

jling-NM

release version different from internal version; circleci tests failing because nipype printing out a message

7

@binarybottle - your release versions (see github releases for mindboggle) are different from internal versions. so etelemetry is getting misleading info from the source code and github. ``` et.get_project('nipy/mindboggle') Out[2]:...

satra

plotting surfaces in jupyter notebook tutorial broken

14

binarybottle

tutorial on mybinder

4

I was wondering if we should create a mybinder instance for the [tutorial](https://github.com/nipy/mindboggle/blob/master/docs/mindboggle_tutorial.ipynb). As far as I can tell, we would only need to include the [mindboggle_input_example](https://osf.io/3xfb8/) in the `Docker`...

PeerHerholz

header orientation direction data incorrect for 14/101 subjects in the Mindboggle-101 dataset

1

@BEL-CO is using Mindboggle data to test our tissue segmentation algorithm. We discovered that 14 of the MRIs in the Mindboggle101 catalog have incorrect orientation direction data in the image...

kinland

Zernike memory issue

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Mindboggle is crashing on many subjects with a memory limit set to 2G: Satrajit Ghosh (2/15/2015): 150215-15:17:45,874 workflow INFO: Executing node Zernike_sulci.a1 in dir: /om/scratch/Tue/ps/MB_work/734db8e05f6be469df79c1419f253ad7/Mindboggle/Surface_feature_shapes/_hemi_rh/Zernike_sulci Load "sulci" scalars from sulci.vtk...

binarybottle

Decimate does not work well with three.js

4

If I `decimate` the individual ROI surfaces, parse using `VTKLoader.js` and try to display via `three.js`, I get about 33% of the surfaces having invalid vertex indices that cause a...

bcipolli

Error when processing Freesurfer Longitudinal stream results

5

Hi mindboggle experts, I am now processing longitudinal data with mindboggle. I’ve tried to set the FreeSurfer longitudinal results as the input to mindboggle, however, it failed since no 001.mgz...

donghm

extract global measures in addition to shape-specific measures

11

in the mindboggle output none of the global measures/stats evaluated by the underlying tools are extracted. while it's possible to go back and extract them separately, it would nice to...

satra

mindboggle for gyral crown lines

1

Hi, This is a request. Perhaps the fundi script can somehow be tweaked to achieve this. If anybody has pointers let me know. Thnx

iamjoostjanssen