add configuration files to run MetaSnk in a slurm cluster

profiles/slurm/config.yaml

+restart-times: 3
+latency-wait: 15
+jobscript: "slurm-jobscript.sh"
+#cluster: "slurm-submit-advanced.py"
+cluster: "sbatch -n {cluster.ntasks} --nodes {cluster.nodes} --time {cluster.time} --mem {cluster.mem} --qos {cluster.qos}"
+#cluster-status: "slurm-status.py"
+max-jobs-per-second: 1
+max-status-checks-per-second: 10
+local-cores: 1

profiles/slurm/slurm-jobscript.sh

+#!/bin/bash
+# properties = {properties}
+echo "Job information:"
+echo "--mem $SLURM_MEM_PER_NODE"
+echo "--ntasks $SLURM_NTASKS"
+echo "times restarted: $SLURM_RESTART_COUNT"
+echo "Node name: $SLURMD_NODENAME"
+
+module load Singularity/2.6.1
+source activate MetaSnk
+
+{exec_job}

slurm_cluster.json

+{
+    "__default__":{
+        "nodes":1,
+        "ntasks":4,
+        "time":"30",
+        "mem" : 8000,       
+        "qos":"30min"
+    },
+    "preprocess":{
+        "nodes":1,
+        "time":"120",
+        "runtime":"60",
+        "ntasks":20,
+        "qos":"6hours",
+        "mem":32000,
+        "constraint":"mem32G"    
+    },
+    "filter_human":{
+        "nodes":1,
+        "time":"{wildcards.resources.runtime}",
+        "runtime":"60",
+        "ntasks":20,
+        "qos":"6hours",
+        "mem":32000,
+        "constraint":"mem32G"  
+    },
+    "index_human_ref":{
+        "nodes":1,
+        "time":"30",
+        "runtime":"30",
+        "ntasks":20,
+        "qos":"30min",
+        "mem":32000,
+        "constraint":"mem32G"
+    },
+    "concatenate_fastqs":{
+        "nodes":1,
+        "ntasks":1,
+        "mem" : 10000,
+        "constraint":"mem10G"
+    }
+}