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neuronflow / BraTS-Toolkit

Code to preprocess, segment, and fuse glioma MRI scans based on the BraTS Toolkit manuscript.
https://www.frontiersin.org/articles/10.3389/fnins.2020.00125/full
GNU Affero General Public License v3.0
70 stars 11 forks source link

trouble with docker connection #15

Closed hermanovak closed 1 year ago

hermanovak commented 2 years ago

Hello, I get this error [Errno 2: No such file or directory: 'docker': 'docker'] when trying to run the prep.single_preprocess command in Google colab. I've downloaded Docker Desktop for Windows and I have it open. Any ideas on how to solve the issue? Thanks!

neuronflow commented 2 years ago

can you run the nvidia docker toolkit hello-world? https://docs.nvidia.com/datacenter/cloud-native/container-toolkit/install-guide.html#id5

hermanovak commented 2 years ago

yes! I did manage to run it

neuronflow commented 2 years ago

can you please elaborate what is the connection between your windows and google colab installation? the error msg looks like you don't have docker properly installed.

hermanovak commented 2 years ago

I'm not sure what the connection is, I haven't attempted to connect docker to it besides running the example python code here https://github.com/neuronflow/BraTS-Toolkit/blob/master/0_preprocessing_single.py with my own images. I initially tried using the brats_preprocessor.app itself but after pressing "start backend" (once I've selected the folders) the startup would fail and I could see the docker container disappear. Does that give enough info? Sorry I'm a bit new to this..

nandomoreno20 commented 2 years ago

Hi, my name is Fernando . I am student of Biomedical Engineer and I am trying to use the Brats Preprocessor in a web app I am developing. I have a problem whit docker and I dont know why the program dont work. I have a Mac year 2017 and I have follow the steps the guide but I dont get that preprocessor work. Put the error , if someone can help me I would appreciate it very much. This is the error: FileNotFoundError: [Errno 2] No such file or directory: 'docker'. I have the docker installed but i dont know because the program dont work. All the best, Fernando.

hermanovak commented 2 years ago

@nandomoreno20 my issue was the same and I didn't get it to work unfortunately, so I haven't used the preprocessor

neuronflow commented 2 years ago

FileNotFoundError: [Errno 2] No such file or directory: 'docker'. I have the docker installed but i dont know because the program dont work. Is your docker daemon running? Can you provide more details?

neuronflow commented 1 year ago

closing until more details are provided, feel free to reopen.