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cluster_config.yml
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# cluster configuration
fastqc:
Job_name: Fastqc # -J
Mem: 10000 # --mem
Cores: 1 #-c
Partition: cpu_short # -p
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
fastqc_post_trim:
Job_name: Fastqc_post_trim # -J
Mem: 10000 # --mem
Cores: 1 #-c
Partition: cpu_short # -p
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
trim:
Job_name: trim # -J
Mem: 5000 # --mem
Partition: cpu_short # -p
Cores: 4 #-c
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
align:
Job_name: align # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 20 #-c
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
align_spike:
Job_name: align_spike-in # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 20 #-c
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
sort:
Job_name: sort # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 20 #-c
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
index:
Job_name: index # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 20 #-c
Time: 240 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
spike_in_norm:
Job_name: spike_norm # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 20 #-c
Time: 60 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
SEACR:
Job_name: SEACR # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 20 #-c
Time: 60 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
fragment_size:
Job_name: fragment_size # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 1 #-c
Time: 60 # -t
Error: logs/slurm_reports/slurm-%j.out # -e
FRP:
Job_name: FRP # -J
Mem: 60000 # --mem
Partition: cpu_short # -p
Cores: 1 #-c
Time: 60 # -t
Error: logs/slurm_reports/slurm-%j.out # -e