Future.batchtools on CLAIX HPC

[zeratoss]

Continuing our discussion from https://bsky.app/profile/henrikbengtsson.bsky.social/post/3lwi7zkk5cc23

Rocky Linux 9.6 (Blue Onyx)
slurm 22.05.10
HPC info https://help.itc.rwth-aachen.de/service/rhr4fjjutttf/article/fbd107191cf14c4b8307f44f545cf68a/
future.batchtools_0.20.0-9017 future_1.67.0

> library(future.batchtools)
Loading required package: parallelly
Loading required package: future
> plan(batchtools_slurm)
> f <- future(Sys.info())
> value(f)

Error: Future (<unnamed-1>) of class BatchtoolsSlurmFuture expired, which indicates that it crashed or was killed.
Post-mortem details:
Future state: ‘running’
Batchtools status: ‘defined’, ‘expired’, ‘submitted’
Slurm job ID: [n=1] ‘60957343’
Slurm 'squeue' job status: <empty>
Slurm 'sacct' job status: 60957343|FAILED|1:0
The last few lines of the logged output:
Session information:
- timestamp: 2025-09-12 10:48:56+0200
- hostname: r23m0148.hpc.itc.rwth-aachen.de
which: no Rscript in (/home/mz637064/.cargo/bin:/cvmfs/software.hpc.rwth.de/Linux/RH9/x86_64/intel/sapphirerapids/software/impi/2021.13.0-intel-compilers-2024.2.0/mpi/2021.13/libfabric/bin:/cvmfs/software.hpc.rwth.de/Linux/RH9/x86_64/intel/sapphirerapids/software/impi/2021.13.0-intel-compilers-2024.2.0/mpi/2021.13/bin:/cvmfs/software.hpc.rwth.de/Linux/RH9/x86_64/intel/sapphirerapids/software/intel-compilers/2024.2.0/compiler/2024.2/bin:/cvmfs/software.hpc.rwth.de/Linux/RH9/x86_64/intel/sapphirerapids/softw
In addition: Warning messages:
1: batchtools::waitForJobs(..., timeout = 2592000) returned FALSE 
2: In delete.BatchtoolsFuture(future) :
  Will not remove batchtools registry, because the status of the batchtools was ‘error’, ‘defined’, ‘expired’, ‘submitted’ and future backend argument 'delete' is ‘on-success’: ‘/rwthfs/rz/cluster/hpcwork/p0020567/analysis/paul_analysis/.future/20250912_104823-KfLJpM/batchtools_1317387372’

So the batchtools parsing issue seems to be resolved. I am not sure what this no Rscript ithing is about as Rscript is definetly in the PATH:

Sys.which("Rscript")
>"/hpcwork/p0020567/enviroments/rslurm/bin/Rscript"