Snakemake Disk quota exceeded error

IFB Core Cluster
1

Bonjour,

I have a problem with my Disk quota exceeded:

Traceback (most recent call last):

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake/cli.py", line 2052, in args_to_api
    dag_api.execute_workflow(

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake/api.py", line 589, in execute_workflow
    workflow.execute(

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake/workflow.py", line 1247, in execute
    raise e

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake/workflow.py", line 1243, in execute
    success = self.scheduler.schedule()
              ^^^^^^^^^^^^^^^^^^^^^^^^^

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake/scheduler.py", line 306, in schedule
    self.run(runjobs)

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake/scheduler.py", line 394, in run
    executor.run_jobs(jobs)

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake_interface_executor_plugins/executors/base.py", line 72, in run_jobs
    self.run_job(job)

  File "/shared/home/aabdalrahem/.local/lib/python3.12/site-packages/snakemake_executor_plugin_cluster_generic/__init__.py", line 102, in run_job
    self.write_jobscript(job, jobscript)

  File "/shared/ifbstor1/software/miniconda/envs/snakemake-8.9.0/lib/python3.12/site-packages/snakemake_interface_executor_plugins/executors/remote.py", line 247, in write_jobscript
    with open(jobscript, "w") as f:
         ^^^^^^^^^^^^^^^^^^^^

OSError: [Errno 122] Disk quota exceeded: '/shared/ifbstor1/projects/pucciniales_mat_genes/EvoMitoGeno/.snakemake/tmp.8ctqle_2/snakejob.denovo_mito_megahit.1160.sh'

I still have a space: [#########-----------] 1895 / 4000 GB

lfs quota -h -p 100464 /shared/ifbstor1/home/aabdalrahem/
Disk quotas for prj 100464 (pid 100464):
     Filesystem    used   quota   limit   grace   files   quota   limit   grace
/shared/ifbstor1/home/aabdalrahem/
                 56.94G    100G    150G       -   91791  127786  217786       -

I already removed cache files and most of the temporary files I don't know what else can I remove from which partition and if there is any chance to increase my quota. Any advice would be appreciated.

Best,
Ammar

2

Hello Ammar,

You have reached the quota of your project, in number of files (5 932 450 files, quota of 4 000 000)
To view: lfs quota -h -p 165792 /shared/projects/pucciniales_mat_genes

Disk quotas for prj 165792 (pid 165792):
     Filesystem    used   quota   limit   grace   files   quota   limit   grace
/shared/projects/pucciniales_mat_genes
                 1.851T  3.906T  5.859T       - 5932450* 4000000 6000000    none

Please, clean some files in this project directory. Above all the funannotate results (with hundreds of thousands of fasta files...).

Best regards