From 76ae32997af66a8ce1db634da7e388ee1584de08 Mon Sep 17 00:00:00 2001
From: Anthony Bretaudeau <anthony.bretaudeau@inria.fr>
Date: Fri, 2 Feb 2024 09:01:30 +0100
Subject: [PATCH] check port at the last moment

---
 tools/genenotebook/launch_gnb.sh | 6 ++++--
 tools/genenotebook/macros.xml    | 1 -
 2 files changed, 4 insertions(+), 3 deletions(-)

diff --git a/tools/genenotebook/launch_gnb.sh b/tools/genenotebook/launch_gnb.sh
index 4c99046..f9d5680 100755
--- a/tools/genenotebook/launch_gnb.sh
+++ b/tools/genenotebook/launch_gnb.sh
@@ -26,8 +26,6 @@ while ! grep -q "Listening on" ./mongod.log; do
   sleep 3
 done;
 
-echo "Mongod is ready, starting gnb now on port ${GNB_PORT} and with mongodb://${MONGO_URI}%2Fmongodb-27017.sock/genenotebook"
-
 TMP_STORAGE=$(pwd)/tmp_storage
 mkdir "$TMP_STORAGE"
 
@@ -36,6 +34,10 @@ touch gnb.log
 
 export NODE_OPTIONS="--max-old-space-size=$((${GALAXY_MEMORY_MB:-8192} * 75 / 100))"
 
+# Find free port at the last moment
+export GNB_PORT=$(bash "$(dirname "${BASH_SOURCE[0]}")/find_free_port.sh")
+echo "Mongod is ready, starting gnb now on port ${GNB_PORT} and with mongodb://${MONGO_URI}%2Fmongodb-27017.sock/genenotebook"
+
 genoboo run --storage-path "$TMP_STORAGE" --port ${GNB_PORT} --mongo-url mongodb://$MONGO_URI%2Fmongodb-27017.sock/genenotebook > ./gnb.log 2>&1 &
 
 export GNB_PID=$!
diff --git a/tools/genenotebook/macros.xml b/tools/genenotebook/macros.xml
index 2240d8e..268e327 100644
--- a/tools/genenotebook/macros.xml
+++ b/tools/genenotebook/macros.xml
@@ -37,7 +37,6 @@
     For some unknwon reason, unixSocketPrefix needs an absolute path
     -->
     <token name="@START_GNB@"><![CDATA[
-        export GNB_PORT="\$(bash '$__tool_directory__/find_free_port.sh')";
         export MONGO_URI="\$(pwd | sed 's|/|%2F|g')";
         #if $existing
             tar -xf '${existing}' mongo_db;