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Updated the README.md file and also fixed issue with the nifti_wrappe… #69

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Jun 12, 2024
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Updated the README.md file and also fixed issue with the nifti_wrappe… #69

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4 changes: 2 additions & 2 deletions Docker/README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -52,8 +52,8 @@ Before running the Docker container, here are the available options for the `Doc
```sh
sudo docker run -it --rm --name TF2.4_IVIM-MRI_CodeCollection \
-v ~/TF2.4_IVIM-MRI_CodeCollection:/usr/src/app \
-v ~/TF2.4_IVIM-MRI_CodeCollection:/usr/app/output \
tf2.4_ivim-mri_codecollection brain.nii.gz brain.bvec brain.bval
-v ~/TF2.4_IVIM-MRI_CodeCollection:/usr/app/output \
tf2.4_ivim-mri_codecollection Downloads/brain.nii.gz Downloads/brain.bvec Downloads/brain.bval \
```

Replace `brain.nii.gz`, `brain.bvec`, and `brain.bval` with the actual file names you want to use.
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2 changes: 1 addition & 1 deletion WrapImage/nifti_wrapper.py
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Expand Up @@ -84,7 +84,7 @@ def loop_over_first_n_minus_1_dimensions(arr):
parser.add_argument("bval_file", type=str, help="Path to the b-value file.")
parser.add_argument("--affine", type=float, nargs="+", help="Affine matrix for NIfTI image.")
parser.add_argument("--algorithm", type=str, default="OJ_GU_seg", help="Select the algorithm to use.")
parser.add_argument("algorithm_args", nargs=argparse.REMAINDER, help="Additional arguments for the algorithm.")
parser.add_argument("--algorithm_args", nargs=argparse.REMAINDER, help="Additional arguments for the algorithm.")

args = parser.parse_args()

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