add sbatch command path

subugoe · Mar 6, 2024 · 875ba95 · 875ba95
1 parent a96016b
commit 875ba95
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Showing 2 changed files with 6 additions and 3 deletions.
diff --git a/src/utils/operandi_utils/hpc/constants.py b/src/utils/operandi_utils/hpc/constants.py
@@ -2,11 +2,14 @@
     "HPC_EXECUTOR_HOSTS",
     "HPC_EXECUTOR_PROXY_HOSTS",
     "HPC_TRANSFER_HOSTS",
-    "HPC_TRANSFER_PROXY_HOSTS"
+    "HPC_TRANSFER_PROXY_HOSTS",
+    "SBATCH_EXE_PATH"
 ]
 
 # "gwdu103.hpc.gwdg.de" - bad host entry, has no access to /scratch1, but to /scratch2
 HPC_EXECUTOR_HOSTS = ["gwdu102.hpc.gwdg.de", "gwdu101.hpc.gwdg.de", "login-mdc.hpc.gwdg.de"]
 HPC_EXECUTOR_PROXY_HOSTS = ["login.gwdg.de"]
 HPC_TRANSFER_HOSTS = ["transfer-scc.gwdg.de", "transfer-mdc.hpc.gwdg.de"]
 HPC_TRANSFER_PROXY_HOSTS = ["transfer.gwdg.de", "login.gwdg.de"]
+
+SBATCH_EXE_PATH: str = "/usr/local/slurm/slurm/current/install/bin/sbatch"
diff --git a/src/utils/operandi_utils/hpc/executor.py b/src/utils/operandi_utils/hpc/executor.py
@@ -4,7 +4,7 @@
 from time import sleep
 from typing import List
 from .connector import HPCConnector
-from .constants import HPC_EXECUTOR_HOSTS, HPC_EXECUTOR_PROXY_HOSTS
+from .constants import HPC_EXECUTOR_HOSTS, HPC_EXECUTOR_PROXY_HOSTS, SBATCH_EXE_PATH
 
 
 class HPCExecutor(HPCConnector):
@@ -71,7 +71,7 @@ def trigger_slurm_job(
 
         nextflow_script_id = nextflow_script_path.split('/')[-1]
         command = "bash -lc"
-        command += " 'sbatch"
+        command += f" '{SBATCH_EXE_PATH}"
 
         if ws_pages_amount < nf_process_forks:
             self.log.warning(