Comments (2)
Which tensor flow version do you use?
from deepfcd.
TensorFlow isn't a hard dependency of the deepFCD
project. It still runs on the deprecated Theano backend of Keras.
TensorFlow and TensorFlow-Probability are required by the ANTsPyNet
dependency which is used for brain extraction. It is embedded within the deepMask
project and is triggered only when preprocessing is done on the CPU (os.environ.get("BRAIN_MASKING") == "cpu"
), since deepMask
is resource-efficient only when run on the GPU.
I'll update deepMask
with the following code so that modules aren't unnecessarily imported:
if os.environ.get("BRAIN_MASKING") == "cpu":
from antspynet.utilities import brain_extraction
from deepfcd.
Related Issues (17)
- Issue with sys.argv HOT 7
- Training routine HOT 10
- Migrate code base to `pytorch`
- Create and test GPU-compatible notebook for Google Colab
- Replace/supplement `sys.argv` with `argparse`
- Introduce checks to ensure input images are co-registered and skull-stripped
- Issue using relative paths for data directories
- Output predictions in structural space HOT 1
- DeepMask update not compatible with this repository HOT 1
- antspyx==0.3.2 not available HOT 1
- CPU running problems HOT 5
- Wrong lesion labelling HOT 1
- Inquiry Regarding the Extraction of Patches from 3D Co-Registered Images and Linear Registration of FLAIR to T1-weighted Images HOT 3
- Query Regarding Squeezing Operation in patch_dataloader.py's load_training_data() Method HOT 2
- Unable to locate code for thresholding and feeding voxels from CNN1 to CNN2
- Inference cpu Docker container HOT 2
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from deepfcd.