Mercurial > repos > gga > genenotebook_genenotebook_build
view launch_gnb.sh @ 2:5a6050937cb9 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/genenotebook commit ec3c633a0751bb9e253bcd77fea425180c9a0014
author | gga |
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date | Fri, 14 Apr 2023 10:13:56 +0000 |
parents | f415e44e71de |
children | dfb2bc3aedbd |
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#!/bin/bash set -e mongod --dbpath ./mongo_db/ --unixSocketPrefix `pwd` --bind_ip fake_socket --logpath ./mongod.log --pidfilepath ./mongo.pid & sleep 8 # "Listening on" is for mongodb 5x if ! grep -q "Listening on" ./mongod.log; then echo "Failed to launch MongoDB:" 1>&2; cat ./mongod.log 1>&2; kill $GNB_PID; exit 1; fi; TMP_STORAGE=$(pwd)/tmp_storage mkdir "$TMP_STORAGE" export NODE_OPTIONS="--max-old-space-size=$((${GALAXY_MEMORY_MB:-8192} * 75 / 100))" genoboo run --storage-path "$TMP_STORAGE" --port ${GNB_PORT} --mongo-url mongodb://$MONGO_URI%2Fmongodb-27017.sock/genenotebook > ./gnb.log 2>&1 & export GNB_PID=$! sleep 15 if ! grep -q "GeneNoteBook server started, serving" ./gnb.log; then echo "Failed to launch GeneNoteBook:" 1>&2; cat ./gnb.log 1>&2; kill $GNB_PID $(<"./mongo.pid"); exit 1; fi;