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Reading WashU's [HCP Pipelines documentation](https://github.com/Washington-University/Pipelines/wiki/v3.4.0-Release-Notes%2C-Installation%2C-and-Usage#prerequisites), FSL 5.0.6 is recommended, as 5.0…
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- Use FreeSurfer 6 beta
- Run FS by default but allow turning it off on the command line
- Make sure to use all available cores for FreeSurfer
- Use `-highres` if the input T1 resolution is
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Hi,
I'm running into a problem when running the `PreFreeSurferPipeline.sh` when the unwarp direction is negative on the second axis (y- / -y):
**T2ToT1wDistortionCorrectAndReg.sh** calls FSL's `…
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In the fieldmaps branch, I'm working on this placeholder (https://github.com/poldracklab/fmriprep/blob/fieldmaps/fmriprep/interfaces/hmc.py#L48) for the head motion correction.
It is based on antsM…
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Hi,
I'm trying to run NODDI on some data acquired using a Human Connectome Project Lifespan protocol. It has three shells at b=(5, 1500, 3000) s / mm^2. The bvals file output from the HCP pre-process…
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though the 64 pipeline fig looks great,
that a bunch that are 0.0001 sig have a higher mean than those with 0.005 sig i think will raise questions we don't want to have to answer.
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Method `check_task_ending_keyword` in ClusterTask seems a bit too strict. In particular, when stdout doesn't exist, it may not be because of a failure of the task and we may want to try to upload the …
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Most of what I've been working on for my thesis has been so-called "encoding" models of electrode activity. This is quite similar to the decoding models already implemented in MNE, but where the outpu…
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It would be interesting to hear about the biggest road blocks for this project. Was it the inexperience of the contributors with Nipype? Was it the complexity of the HCP minimal preprocessing pipeline…
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Hey guys,
My jobs finish with the following error message:
```
/var/spool/torque/mom_priv/jobs/35134401-1.gpc-sched-ib0.SC: line 102: syntax error near unexpected token `('
/var/spool/torque/mom_pr…