diff --git a/spacetop_prep/datalad/remove_dups_anatfmap.sh b/spacetop_prep/datalad/remove_dups_anatfmap.sh
index 256e0c4..1666d08 100644
--- a/spacetop_prep/datalad/remove_dups_anatfmap.sh
+++ b/spacetop_prep/datalad/remove_dups_anatfmap.sh
@@ -1,62 +1,95 @@
-# Define a file to log errors
-error_log="error_log_funcanat.txt"
+## TODO: change the file so that the dup is the earlier scan
+## the latter scan should be better. always. 
+
 
+
+# Define a file to log errors
+# error_log="error_log_funcanat.txt"
+LOG_FILE="fmap_error_log.txt"
 # mapfile -t dup_files < <(find . -type f -name '*__dup-*')
 
 dup_files=()
 while IFS= read -r -d $'\n' file; do
     dup_files+=("$file")
-done < <(find . -type f -name '*fmap__dup-*')
+done < <(find . -type f -name '**/fmap/*__dup-*')
 # done < <(find . -type f -path '*/func/*__dup-*')
 # Loop through each file found.
 for DUPJSON in "${dup_files[@]}"; do
     # Use jq to extract TR values.
-    DUPJSON_TR=$(jq '.dcmmeta_shape[3]' "${DUPJSON}")
-    BOLDJSON=$(echo "${DUPJSON}" | sed 's/__dup-[0-9]*//')
-    BOLDJSON_TR=$(jq '.dcmmeta_shape[3]' "${BOLDJSON}")
-    if [[ "$BOLDJSON_TR" == "null" || "$BOLDJSON_TR" =~ "error" ]]; then
-        echo "$BOLDJSON: Error extracting TR value." >> "$error_log"
+    DUPJSON_TR=$(jq '.AcquisitionTime' "${DUPJSON}")
+    PRIMARYJSON=$(echo "${DUPJSON}" | sed 's/__dup-[0-9]*//')
+    PRIMARYJSON_TR=$(jq '.AcquisitionTime' "${PRIMARYJSON}")
+    if [[ "$PRIMARYJSON_TR" == "null" || "$PRIMARYJSON_TR" =~ "error" ]]; then
+        echo "$PRIMARYJSON: Error extracting TR value." >> "$error_log"
         continue
     fi
-    # Initialize a flag to indicate a matching key has been found.
-    found_match=0
-
-    # Attempt to extract a meaningful part of the filename to match against array keys.
-    filename=$(basename "$DUPJSON")
-    filename=${filename%__dup-*}
-
-    # Iterate over keys in myArray.
-    for key in "${!myArray[@]}"; do
-        if [[ "$filename" == *"$key"* ]]; then
-            found_match=1
-            EXPECTED_TR=${myArray[$key]}
-            echo "Found matching key: $key with TR: $EXPECTED_TR for file $DUPJSON"
-            if [[ "$BOLDJSON_TR" -eq "$EXPECTED_TR" && "$DUPJSON_TR" -lt "$BOLDJSON_TR" ]]; then
-                echo "Conditions met for $DUPJSON. Removing file."
-                # Uncomment the next line to perform file removal
-                
-                # generic_filename=$(echo "$DUPJSON" | sed -E 's/(run-[0-9]+_).+(__dup-.+)/\1*\2/')
-            generic_filename=$(echo "$DUPJSON" | sed -E 's/(run-[0-9]+_).+(__dup-[0-9]+).*/\1*\2.*/')
-            read -a files_to_remove <<< "$generic_filename"
-
-            # Loop through the array and remove each file
-            for rm_file in "${files_to_remove[@]}"; do
-                git rm "$rm_file"
-            done
-
-            else
-                # Handle errors
-                if [[ "$DUPJSON_TR" -ge "$BOLDJSON_TR" ]]; then
-                    echo "$DUPJSON: DUPJSON_TR (${DUPJSON_TR}) is not smaller than BOLDJSON_TR (${BOLDJSON_TR})." >> "$error_log"
-                fi
-                if [[ "$BOLDJSON_TR" -ne "$EXPECTED_TR" ]]; then
-                    echo "$BOLDJSON: BOLDJSON_TR (${BOLDJSON_TR}) does not match EXPECTED_TR ($EXPECTED_TR)." >> "$error_log"
-                fi
-            fi
-            break
-        fi
-        done           
-    if [[ $found_match -eq 0 ]]; then
-        echo "No matching key found in the array for $DUPJSON"
+
+    PRIMARYJSON_SEC=$(echo $PRIMARYJSON_TR | awk -F: '{ print ($1 * 3600) + ($2 * 60) + $3 }')
+    DUPJSON_SEC=$(echo $DUPJSON_TR | awk -F: '{ print ($1 * 3600) + ($2 * 60) + $3 }')
+
+    # Compare the numeric values
+    if (( $(echo "$PRIMARYJSON_SEC < $DUPJSON_SEC" |bc -l) )); then
+        echo "PRIMARYJSON acquisition time is earlier." >> $LOG_FILE
+        echo "Error: PRIMARYJSON has an earlier time than DUPJSON" >> $LOG_FILE
+    elif (( $(echo "$PRIMARYJSON_SEC > $DUPJSON_SEC" |bc -l) )); then
+        echo "DUPJSON acquisition time is earlier." >> $LOG_FILE
+        echo "Info: DUPJSON is identified as the correct file due to earlier acquisition time." >> $LOG_FILE
+        generic_filename=$(echo "$DUPJSON" | sed -E 's/(run-[0-9]+_).+(__dup-[0-9]+).*/\1*\2.*/')
+        read -a files_to_remove <<< "$generic_filename"
+        echo "removed files: ${generic_filename}" >> $LOG_FILE
+        # Loop through the array and remove each file
+        for rm_file in "${files_to_remove[@]}"; do
+            echo "remove!"
+            # git rm "$rm_file"
+        done
+    else
+        echo "Acquisition times are the same." >> $LOG_FILE
+        # Log as error or info since times being the same might be unexpected
+        echo "Warning: PRIMARYJSON and DUPJSON have the same acquisition time." >> $LOG_FILE
     fi
-done 
+
+
+
+
+#     # Initialize a flag to indicate a matching key has been found.
+#     found_match=0
+
+#     # Attempt to extract a meaningful part of the filename to match against array keys.
+#     filename=$(basename "$DUPJSON")
+#     filename=${filename%__dup-*}
+
+#     # Iterate over keys in myArray.
+#     for key in "${!myArray[@]}"; do
+#         if [[ "$filename" == *"$key"* ]]; then
+#             found_match=1
+#             EXPECTED_TR=${myArray[$key]}
+#             echo "Found matching key: $key with TR: $EXPECTED_TR for file $DUPJSON"
+#             if [[ "$PRIMARYJSON_TR" -eq "$EXPECTED_TR" && "$DUPJSON_TR" -lt "$PRIMARYJSON_TR" ]]; then
+#                 echo "Conditions met for $DUPJSON. Removing file."
+#                 # Uncomment the next line to perform file removal
+                
+#                 # generic_filename=$(echo "$DUPJSON" | sed -E 's/(run-[0-9]+_).+(__dup-.+)/\1*\2/')
+#             generic_filename=$(echo "$DUPJSON" | sed -E 's/(run-[0-9]+_).+(__dup-[0-9]+).*/\1*\2.*/')
+#             read -a files_to_remove <<< "$generic_filename"
+
+#             # Loop through the array and remove each file
+#             for rm_file in "${files_to_remove[@]}"; do
+#                 git rm "$rm_file"
+#             done
+
+#             else
+#                 # Handle errors
+#                 if [[ "$DUPJSON_TR" -ge "$PRIMARYJSON_TR" ]]; then
+#                     echo "$DUPJSON: DUPJSON_TR (${DUPJSON_TR}) is not smaller than PRIMARYJSON_TR (${PRIMARYJSON_TR})." >> "$error_log"
+#                 fi
+#                 if [[ "$PRIMARYJSON_TR" -ne "$EXPECTED_TR" ]]; then
+#                     echo "$PRIMARYJSON: PRIMARYJSON_TR (${PRIMARYJSON_TR}) does not match EXPECTED_TR ($EXPECTED_TR)." >> "$error_log"
+#                 fi
+#             fi
+#             break
+#         fi
+#         done           
+#     if [[ $found_match -eq 0 ]]; then
+#         echo "No matching key found in the array for $DUPJSON"
+#     fi
+# done