From b2c947e5ed6a825548b2ec9f3ff8559cec97b238 Mon Sep 17 00:00:00 2001 From: Hugo Tavares Date: Mon, 1 Jul 2024 11:10:03 +0100 Subject: [PATCH] update CSD3 scripts --- course_files/csd3/slurm/drosophila_genome_indexing.sh | 1 - course_files/csd3/slurm/estimate_pi.sh | 1 - course_files/csd3/slurm/parallel_arrays.sh | 1 - course_files/csd3/slurm/parallel_drosophila_mapping.sh | 1 - course_files/csd3/slurm/parallel_estimate_pi.sh | 1 - course_files/csd3/slurm/parallel_turing_pattern.sh | 1 - course_files/csd3/slurm/seqkit_singularity.sh | 1 - course_files/csd3/slurm/simple_job.sh | 1 - 8 files changed, 8 deletions(-) diff --git a/course_files/csd3/slurm/drosophila_genome_indexing.sh b/course_files/csd3/slurm/drosophila_genome_indexing.sh index 9cc8c11..43ddb75 100644 --- a/course_files/csd3/slurm/drosophila_genome_indexing.sh +++ b/course_files/csd3/slurm/drosophila_genome_indexing.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/drosophila_genome_indexing.log diff --git a/course_files/csd3/slurm/estimate_pi.sh b/course_files/csd3/slurm/estimate_pi.sh index 1f95054..440019e 100644 --- a/course_files/csd3/slurm/estimate_pi.sh +++ b/course_files/csd3/slurm/estimate_pi.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/estimate_pi.log # standard output file diff --git a/course_files/csd3/slurm/parallel_arrays.sh b/course_files/csd3/slurm/parallel_arrays.sh index f15428a..252f1c8 100644 --- a/course_files/csd3/slurm/parallel_arrays.sh +++ b/course_files/csd3/slurm/parallel_arrays.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/parallel_arrays_%a.log diff --git a/course_files/csd3/slurm/parallel_drosophila_mapping.sh b/course_files/csd3/slurm/parallel_drosophila_mapping.sh index a9d4abf..18a6753 100644 --- a/course_files/csd3/slurm/parallel_drosophila_mapping.sh +++ b/course_files/csd3/slurm/parallel_drosophila_mapping.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/drosophila_mapping_%a.log diff --git a/course_files/csd3/slurm/parallel_estimate_pi.sh b/course_files/csd3/slurm/parallel_estimate_pi.sh index be36e88..8716bea 100644 --- a/course_files/csd3/slurm/parallel_estimate_pi.sh +++ b/course_files/csd3/slurm/parallel_estimate_pi.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/parallel_estimate_pi_%a.log diff --git a/course_files/csd3/slurm/parallel_turing_pattern.sh b/course_files/csd3/slurm/parallel_turing_pattern.sh index b3daf76..3bccdff 100644 --- a/course_files/csd3/slurm/parallel_turing_pattern.sh +++ b/course_files/csd3/slurm/parallel_turing_pattern.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/turing_pattern_%a.log diff --git a/course_files/csd3/slurm/seqkit_singularity.sh b/course_files/csd3/slurm/seqkit_singularity.sh index 89894ee..538f4c8 100644 --- a/course_files/csd3/slurm/seqkit_singularity.sh +++ b/course_files/csd3/slurm/seqkit_singularity.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training #SBATCH -p icelake # name of the partition to run job on #SBATCH -D /home/FIX-YOUR-USERNAME/rds/hpc-work/hpc_workshop/ # working directory #SBATCH -o logs/seqkit.log # standard output file diff --git a/course_files/csd3/slurm/simple_job.sh b/course_files/csd3/slurm/simple_job.sh index 368545a..3b23c2f 100644 --- a/course_files/csd3/slurm/simple_job.sh +++ b/course_files/csd3/slurm/simple_job.sh @@ -1,6 +1,5 @@ #!/bin/bash #SBATCH -A TRAINING-CPU -#SBATCH --reservation=training sleep 60 # hold for 60 seconds