change in/out paths

Author: singlesp

analysis/task_glm/run_fracback_glm_first_level.py

@@ -64,9 +64,7 @@
 MODEL_TYPES = ["rtdur", "nortdur"]
 for model_type in MODEL_TYPES:
     # Output directory for maps + reports
-    out_dir = Path(
-        f"/cbica/projects/grmpy/analysis/task_glm/first-level/results/fracback-{model_type}"
-    )
+    out_dir = Path(f"/cbica/projects/grmpy/data/derivatives/fracback-{model_type}")
     out_dir.mkdir(parents=True, exist_ok=True)
 
     (

analysis/task_glm/run_fracback_glm_first_level.slurm

@@ -1,7 +1,7 @@
 #!/bin/bash -l
 #SBATCH --job-name=nback_firstlevel
-#SBATCH --output=/cbica/projects/grmpy/analysis/task_glm/first-level/logs/fracback_%A_%a.out
-#SBATCH --error=/cbica/projects/grmpy/analysis/task_glm/first-level/logs/fracback_%A_%a.err
+#SBATCH --output=/cbica/projects/grmpy/data/derivatives/logs/fracback_%A_%a.out
+#SBATCH --error=/cbica/projects/grmpy/data/derivatives/logs/fracback_%A_%a.err
 #SBATCH --array=0-194         # 195 subjects
 #SBATCH --time=03:00:00
 #SBATCH --cpus-per-task=4
@@ -19,7 +19,7 @@ micromamba activate nilearn
 # SUBJECT LIST (NO COMMAS)
 # --------------------------
 
-mapfile -t SUBJECT_LIST < ~/analysis/task_glm/subjects.txt
+mapfile -t SUBJECT_LIST < /cbica/projects/grmpy/code/analysis/task_glm/subjects.txt
 
 SUB_ID=${SUBJECT_LIST[$SLURM_ARRAY_TASK_ID]}
 

analysis/task_glm/run_fracback_second_level.py

@@ -32,15 +32,15 @@
 
 for model_type in MODEL_TYPES:
     firstlevel_dir = Path(
-        f"/cbica/projects/grmpy/analysis/task_glm/first-level/results/fracback-{model_type}"
+        f"/cbica/projects/grmpy/data/derivatives/fracback-{model_type}"
     )
     for contrast_label in CONTRAST_LABELS:
         print("\n====================================================")
         print(f"Running group model for contrast: {contrast_label}")
         print("====================================================\n")
 
         group_out_dir = Path(
-            f"/cbica/projects/grmpy/analysis/task_glm/second-level/fracback-{model_type}/group-{contrast_label}"
+            f"/cbica/projects/grmpy/data/derivatives/fracback-{model_type}/group-{contrast_label}"
         )
         group_out_dir.mkdir(exist_ok=True, parents=True)
 

analysis/task_glm/run_fracback_second_level.slurm

@@ -1,7 +1,7 @@
 #!/bin/bash
 #SBATCH --job-name=nback_secondlevel
-#SBATCH --output=/cbica/projects/grmpy/analysis/task_glm/second-level/logs/fracback_%j.out
-#SBATCH --error=/cbica/projects/grmpy/analysis/task_glm/second-level/logs/fracback_%j.err
+#SBATCH --output=/cbica/projects/grmpy/data/derivatives/logs/fracback_secondlevel_%j.out
+#SBATCH --error=/cbica/projects/grmpy/data/derivatives/logs/fracback_secondlevel_%j.err
 #SBATCH --time=01:00:00
 #SBATCH --cpus-per-task=4
 #SBATCH --mem=8G