|
|
@@ -47,3 +47,26 @@ Example:
|
|
|
-CONTAINER_PATH <path/to/brainageR.sif> \
|
|
|
```
|
|
|
|
|
|
+### Enigma folder:
|
|
|
+
|
|
|
+1) Building the containers
|
|
|
+
|
|
|
+Preprocessing: `singularity build --fakeroot cat_preprocessing.simg Singularity_r2042`
|
|
|
+Prediction: `singularity build --fakeroot enigma_stacking_agepred.simg enigma_stacking_pred.def`
|
|
|
+
|
|
|
+/!\ It is important to not change the name of the containers
|
|
|
+
|
|
|
+2) Run the `get_brainage.sh` with the proper files and paths
|
|
|
+
|
|
|
+Example:
|
|
|
+
|
|
|
+```
|
|
|
+./get_brainage.sh -input <input_directory> \
|
|
|
+ -output <output_directory> \
|
|
|
+ -BIDS <yes/no> \
|
|
|
+ -CONDOR <yes/no> \
|
|
|
+ -RAW <yes/no> \
|
|
|
+ -RUN_FILE run_enigma.sh \
|
|
|
+ -SAVE_ALL <yes/no> \
|
|
|
+ -CONTAINER_PATH <path/to/brainageR.sif> \
|
|
|
+```
|
