BrainArea

Unix path too long

2

Hello, Im trying to sync a folder over a ssh connection and a local folder but I get the following error: unix listener too long for Unix domain socket I...

ANTS with source needs little update

5

I was trying to install ANTS through sources and it was giving me the following error: "The unauthenticated git protocol on port 9418 is no longer supported" I found out...

Multi-arch support problem for recent Linux distro (potential solution included)

9

When one is trying to install AFNI (not sure if issue is there for other packages) with a recent distribution (above debian:stretch) like this: ``` docker run --rm repronim/neurodocker:master generate...

I' m using NiPype through a Singularity image made with Neurodocker. I have successfully used other SPM preprocessing functions but the Normalize12 is crashing. I'm basically using the following code:...

### Summary After updating Nipype to 1.7 from 1.6.1, SPM/Matlab setup gives en error ### Script/Workflow details Running this code with 1.7 ``` matlab_cmd = '/opt/spm12-r7771/run_spm12.sh /opt/matlabmcr-2019b/v97/ script' spm.SPMCommand.set_mlab_paths(matlab_cmd=matlab_cmd, use_mcr=True)...

### Summary I’ m using NiPype through a Singularity image made with Neurodocker. I have successfully used other SPM preprocessing functions but the Normalize12 is crashing. ### Code used ```...

NIPYPE Matlab issue

1

### Summary Anytime I do anything related to SPM I have this error showing along with the typical Matlab beep sound error: `stty: 'standard input': Inappropriate ioctl for device` ###...

I created a Singularity image with script provided in tutorial and started a jupyter-lab session on our remote research computing device. It has been working so far for many functions,...

spm.Normalize12() issue. Mutually exclusive fields, aren't ?

1

When I'm trying to normalize some data using spm.Normalize12() with the following code, everything goes fine ``` norm = spm.Normalize12() norm.inputs.image_to_align = os.path.join(T1_output_folder,'T1.nii') norm.inputs.apply_to_files = [os.path.join(Recon_output_folder,'rrrRecon_full_run1.nii'),os.path.join(Recon_output_folder,'rrrRecon_full_run2.nii')] norm.run() ``` But when...

white matter atlas?

1

Would it be possible to add a white matter atlas? Or could you indicate one usable by bspmview?