Initial commit

skills/phylo_from_buscos/templates/slurm/02_compleasm_parallel.job

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+#!/bin/bash
+#SBATCH --job-name=compleasm_parallel
+#SBATCH --array=2-NUM_GENOMES  # Start from genome 2 (first genome already processed)
+#SBATCH --cpus-per-task=THREADS_PER_JOB  # e.g., 16 for 64-core system with 4 concurrent jobs
+#SBATCH --mem-per-cpu=6G
+#SBATCH --time=48:00:00
+#SBATCH --output=logs/compleasm.%A_%a.out
+#SBATCH --error=logs/compleasm.%A_%a.err
+
+source ~/.bashrc
+conda activate phylo
+
+mkdir -p 01_busco_results
+
+# Get genome for this array task (skipping the first one)
+genome=$(sed -n "${SLURM_ARRAY_TASK_ID}p" genome_list.txt)
+genome_name=$(basename ${genome} .fasta)
+
+echo "Processing ${genome_name} with ${SLURM_CPUS_PER_TASK} threads..."
+
+compleasm run \
+  -a ${genome} \
+  -o 01_busco_results/${genome_name}_compleasm \
+  -l LINEAGE \
+  -t ${SLURM_CPUS_PER_TASK}