From 9fea10f89fe81b82381875952e8e73f4ac57b50d Mon Sep 17 00:00:00 2001
From: "Daniel M. Drucker" <ddrucker@mclean.harvard.edu>
Date: Wed, 27 Mar 2024 08:58:51 -0400
Subject: [PATCH] bidsmerge2

---
 bidsmerge2 | 22 ++++++++++++++++++++++
 1 file changed, 22 insertions(+)
 create mode 100755 bidsmerge2

diff --git a/bidsmerge2 b/bidsmerge2
new file mode 100755
index 0000000..e40bbcb
--- /dev/null
+++ b/bidsmerge2
@@ -0,0 +1,22 @@
+#!/bin/bash
+# Extremly simplistic tool to merge one BIDS directory into another
+
+if [ "$#" -ne 2 ] || ! [ -d "$1" ] || ! [ -d "$2" ]; then
+  echo "Usage: $0 SOURCEDIR DESTDIR" >&2
+  exit 1
+fi
+
+SOURCE=$1
+DEST=$2
+
+for d in ${SOURCE} ${DEST}; do
+  # is this even nominally a BIDS folder?
+  if ! [ -e "${d}"/dataset_description.json ]; then
+    echo "${d} doesn't seem like a BIDS folder to me." >&2
+    echo "Exiting, out of an abundance of caution." >&2
+    exit 1
+  fi
+done
+
+rsync -a --remove-source-files "${SOURCE}"/ "${DEST}"/
+find "${SOURCE}" -depth -type d -empty -delete