Long pending jobs for 2 days

IFB Core Cluster
1

Hi,
My job in Alpholdv2.2.3 has been pending since the last two days for single FASTA files, it uisally never took 2 days to run for jobs for single FASTA files. Please, could you kindly into this matter.

Thanking you

Here is my script (in case if there's anything )
#!/bin/bash

#SBATCH --partition=gpu
#SBATCH --gres=gpu:3g.20gb:1
#SBATCH --cpus-per-task=10
#SBATCH --mem=50G
#SBATCH --account=ancest_or_
#SBATCH --time 36:00:00

module load alphafold/2.2.3

mkdir -p /tmp/$USER_alphafold

srun run_alphafold.sh --use_gpu_relax=True --fasta_paths=/shared/projects/ancest_or_/SfruGR139.fa
--output_dir=/shared/projects/ancest_or_
--model_preset=monomer
--db_preset=full_dbs
--data_dir=/shared/bank/alphafold2/current/2.3
--uniref90_database_path=/shared/bank/alphafold2/current/2.3/uniref90/uniref90.fasta
--mgnify_database_path=/shared/bank/alphafold2/current/2.3/mgnify/mgy_clusters_2018_12.fa
--pdb70_database_path=/shared/bank/alphafold2/current/2.3/pdb70/pdb70
--template_mmcif_dir=/shared/bank/alphafold2/current/2.3/pdb_mmcif/mmcif_files
--max_template_date=2020-05-14
--obsolete_pdbs_path=/shared/bank/alphafold2/current/2.3/pdb_mmcif/obsolete.dat
--bfd_database_path=/shared/bank/alphafold2/current/2.3/bfd/bfd_metaclust_clu_complete_id30_c90_final_seq.sorted_opt
--uniclust30_database_path=/shared/bank/alphafold2/2022-09-21/uniclust30/uniclust30_2018_08/uniclust30_2018_08

long Pending

2

Hello,
My job in Alphafold is stuck at pending status since last 5 days which never happened before. Please could you let me know why is it taking this long and how can I resolve this isssue?

Thanking you

Have a nice day!

3

Hello,

There are only 2 profiles "3g.20gb". A widely used profile. So there's sometime a lot of waiting time.

May be try with another profile, smaller, like 1g.5gb ?

More information:

Best regards