From f5dd585d1eeaddfa8a2282b6a70cc9696ec01904 Mon Sep 17 00:00:00 2001
From: khalid belkhir <khalid.belkhir@univ-montp2.fr>
Date: Mon, 16 Dec 2019 09:06:17 +0100
Subject: [PATCH] Only One file to run workflow in cmdline
---
deployBigMemCmdLine.sh => RunCmdLine.sh | 15 ++++++++++-----
deployBigMemInterface.sh | 11 ++++++++---
2 files changed, 18 insertions(+), 8 deletions(-)
rename deployBigMemCmdLine.sh => RunCmdLine.sh (79%)
diff --git a/deployBigMemCmdLine.sh b/RunCmdLine.sh
similarity index 79%
rename from deployBigMemCmdLine.sh
rename to RunCmdLine.sh
index 5afa552..ce90d95 100644
--- a/deployBigMemCmdLine.sh
+++ b/RunCmdLine.sh
@@ -1,17 +1,22 @@
#!/bin/bash
-#This script will help a deployment of a docker image on an MBB bigmem machine
-
-
+#This script will help to run a workflow in a docker image.
+if [ $# -lt 4 ]
+then
+ echo usage : $0 dataDir resultsDir configFile nbCores '[dockerHub|local]'
+ exit
+fi
# Docker volumes
# MBB Workflows reads data from /Data and write results to /Results
-
Data=$1
Results=$2
+if [ ! -d "$Data" ]; then
+ echo "can't find $Data directory !"
+ exit;
+fi
-mkdir -p $Data
mkdir -p $Results
DOCK_VOL+=" --mount type=bind,src=$Data,dst=/Data"
diff --git a/deployBigMemInterface.sh b/deployBigMemInterface.sh
index f416066..11b6bf4 100644
--- a/deployBigMemInterface.sh
+++ b/deployBigMemInterface.sh
@@ -1,7 +1,11 @@
#!/bin/bash
#This script will help a deployment of a docker image on an MBB bigmem machine
-
+if [ $# -lt 2 ]
+then
+ echo usage : $0 dataDir resultsDir '[dockerHub|local]'
+ exit
+fi
#nginx
##### nginx install #####
#sudo apt-get install -y nginx
@@ -81,12 +85,13 @@ CONTAINER_ID=$( docker run --rm -d -p $APP_PORT:3838 $DOCK_VOL $APP_IMG )
if [ $CONTAINER_ID ]
then
echo " "
- echo You have to put your Data on : $2
+ echo You have to put your Data on : $1
echo " "
- echo Results will be written to : $3
+ echo Results will be written to : $2
echo " "
hostname -I | awk -v port=$APP_PORT '{print "You can access the workflow interface at : http://"$1":"port}'
echo " "
+ echo To start a Bash session inside the container : docker exec -it $CONTAINER_ID /bin/bash
else
echo Failed to run the docker container !!
fi
--
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