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TEMPDIR /lscratch/$SLURM_JOB_ID cannot be written to #117

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kelly-sovacool opened this issue Oct 1, 2024 · 0 comments · Fixed by #118
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TEMPDIR /lscratch/$SLURM_JOB_ID cannot be written to #117

kelly-sovacool opened this issue Oct 1, 2024 · 0 comments · Fixed by #118
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bug Something isn't working ccbrpipeliner/7
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kelly-sovacool commented Oct 1, 2024

error reported by @wilfriedguiblet

module use /data/CCBR_Pipeliner/ccbrpipeliner_dev/modules
module load ccbrpipeliner/7
charlie -w=/data/$USER/charlie_test_rel-7 -m=init
charlie -w=/data/$USER/charlie_test_rel-7 -m=dryrun
[+] Loading singularity  4.0.3  on cn1951
[+] Loading snakemake  7.32.4
Working Dir: /gpfs/gsfs12/users/sovacoolkl/charlie_test_rel-7
singularity cache dir (--singcache) is not set, using /data/sovacoolkl/.singularity
[+] Loading python 3.10  ...
[-] Unloading snakemake  7.32.4
[+] Loading snakemake  7.32.4
[-] Unloading singularity  4.0.3  on cn1951
[+] Loading singularity  4.0.3  on cn1951
sbatch --parsable --cpus-per-task {cluster.threads} -p {cluster.partition} -t {cluster.time} --mem {cluster.mem} --job-name {cluster.name} --output {cluster.output} --error {cluster.error} --gres {cluster.gres}
PermissionError in file /gpfs/gsfs10/users/CCBR_Pipeliner/Pipelines/CHARLIE/.v0.11.0/workflow/rules/init.smk, line 91:
TEMPDIR /lscratch/$SLURM_JOB_ID cannot be written to.
        Hint: does the path exist and do you have write permissions?
  File "/gpfs/gsfs10/users/CCBR_Pipeliner/Pipelines/CHARLIE/.v0.11.0/workflow/Snakefile", line 19, in <module>
  File "/gpfs/gsfs10/users/CCBR_Pipeliner/Pipelines/CHARLIE/.v0.11.0/workflow/rules/init.smk", line 91, in <module>

also occurs with -m=run

@kelly-sovacool kelly-sovacool added the bug Something isn't working label Oct 1, 2024
@kelly-sovacool kelly-sovacool self-assigned this Oct 1, 2024
@kelly-sovacool kelly-sovacool added this to the 2024-10 milestone Oct 1, 2024
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