diff serve.bash @ 41:d129c3d0e920 draft default tip

planemo upload for repository https://github.com/richard-burhans/galaxytools/tree/main/tools/ncbi_egapx commit 8278322cb9db499c593669d2bb8b740024ecf5dc

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/serve.bash	Mon Jul 28 14:35:28 2025 +0000
@@ -0,0 +1,72 @@
+#!/usr/bin/env bash
+
+set -o errexit
+set -o nounset
+set -o pipefail
+#set -o xtrace
+
+export TMP=/scratch/rico/tmp
+
+#source "/scratch/rico/new/env.bash"
+
+export PLANEMO_GLOBAL_WORKSPACE=/scratch/rico/planemo
+export PLANEMO_GLOBAL_CONFIG_PATH=${PLANEMO_GLOBAL_WORKSPACE}/.planemo.yml
+CLEAN=0
+CLEAN=1
+
+if [ -e "/scratch/rico/galaxy" ]; then
+    z_time=$(stat --format="%Z" "/scratch/rico/galaxy")
+
+    w_time=$(stat --format="%W" "/scratch/rico/galaxy")
+    if [ $w_time -ne 0 ]; then
+        if [ $w_time -lt $z_time ]; then
+            z_time="$w_time"
+        fi
+    fi
+
+    now=$(date +%s)
+    delta=$(( now - z_time ))
+    if [ $delta -ge 86400 ]; then
+        CLEAN=1
+    fi
+else
+    CLEAN=1
+fi
+
+if [ $CLEAN -ne 0 ]; then
+    rm -rf /scratch/rico/galaxy
+    rm -rf "$PLANEMO_GLOBAL_WORKSPACE"
+    rm -rf /scratch/rico/.npm 
+    mkdir /scratch/rico/.npm
+fi
+
+rm -rf /tmp/tmp* "$TMP/tmp*"
+
+export GALAXY_SLOTS=64
+export GALAXY_MEMORY_MB=262144
+
+if [ $CLEAN -ne 0 ]; then
+    planemo serve \
+        --galaxy_root /scratch/rico/galaxy \
+        --docker \
+        --no_docker_sudo \
+        --no_cleanup \
+        2>&1 \
+        | tee serve.out
+else
+    planemo serve \
+        --galaxy_root /scratch/rico/galaxy \
+        --docker \
+        --no_docker_sudo \
+        --skip_client_build \
+        --no_cleanup \
+        2>&1 \
+        | tee serve.out
+fi
+
+# Galaxy upload tool fails when using planemo server on galaxy release branch 24
+# 
+# rm -rf /scratch/rico/galaxy; planemo serve --galaxy_branch release_23.2 --galaxy_root /scratch/rico/galaxy
+# rm -rf /scratch/rico/galaxy; planemo serve --galaxy_branch release_24.0 --galaxy_root /scratch/rico/galaxy
+
+