adding installation script for miniconda, and SLURM job files for sin…

…gularity and Jupyter notebook launchers

slurm-gcp/SampleSlurmJobs/helloworld_singularity.slrm

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+#!/bin/bash
+#SBATCH --partition debug
+#SBATCH --nodes 1
+#SBATCH --ntasks-per-node 1
+#SBATCH --mem-per-cpu 2G
+#SBATCH --time 1-0:00:00
+#SBATCH --job-name singularity-helloworld
+#SBATCH --output hellowrold-singularity-%J.log
+
+date
+hostname
+
+module load singularity
+
+echo "================================================ "
+echo "download image"
+singularity pull shub://singularityhub/hello-world
+echo "Executing the hello-world image"
+singularity run ./hello-world_latest.sif
+echo "================================================ "
+

slurm-gcp/SampleSlurmJobs/jupyter_launch.slrm

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+#!/bin/bash
+#SBATCH --partition debug
+#SBATCH --nodes 1
+#SBATCH --ntasks-per-node 1
+#SBATCH --mem-per-cpu 4G
+#SBATCH --time 2-0:00:00
+#SBATCH --job-name jupyter-notebook-tunnel
+#SBATCH --output jupyter-notebook-tunnel-%J.log
+
+# get tunneling info
+XDG_RUNTIME_DIR=""
+# port=$(shuf -i8080-8084 -n1)
+port=8080
+node=$(hostname -s)
+ip=$(hostname -i)
+user=$(whoami)
+cluster=$(hostname -f)
+
+# print tunneling instructions jupyter-log
+echo -e "
+CloudShell port forward command for WebPreview
+gcloud compute ssh ${node} -- -A -t -l ${user} -f -N -L ${port}:${ip}:${port}
+"
+
+module load miniconda
+
+# DON'T USE ADDRESS BELOW. 
+# DO USE TOKEN BELOW
+jupyter-notebook --no-browser --port=${port} --ip=${ip}
+

slurm-gcp/scripts/install_miniconda.sh

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+conda_version=4.9.2
+wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O /tmp/miniconda.sh
+chmod +x /tmp/miniconda.sh
+/tmp/miniconda.sh -b -p /apps/miniconda/$conda_version -f
+/apps/miniconda/$conda_version/bin/conda install jupyter -y
+
+#conda_version=$( /apps/miniconda/bin/conda --version | awk '{print $2}')
+mkdir -p /apps/modulefiles/miniconda
+bash -c "cat > /apps/modulefiles/miniconda/${conda_version}" << CONDA_MODULEFILE
+#%Module1.0#####################################################################
+##
+## modules miniconda/conda_version 
+##
+## modulefiles/miniconda/conda_version
+##
+proc ModulesHelp { } {
+        global version modroot
+        puts stderr "miniconda/$conda_version - sets the environment for miniconda"
+}
+module-whatis   "Sets the environment for using miniconda"
+# for Tcl script use only
+set     topdir          /apps/miniconda/$conda_version
+set     version         $conda_version
+set     sys             linux86
+prepend-path    PATH            /apps/miniconda/$conda_version/bin
+CONDA_MODULEFILE
+