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

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+#!/bin/bash
+#PBS -N compleasm_parallel
+#PBS -t 2-NUM_GENOMES  # Start from genome 2 (first genome already processed)
+#PBS -l nodes=1:ppn=THREADS_PER_JOB  # e.g., 16 for 64-core system
+#PBS -l mem=96gb  # Adjust based on ppn × 6GB
+#PBS -l walltime=48:00:00
+
+cd $PBS_O_WORKDIR
+source ~/.bashrc
+conda activate phylo
+
+mkdir -p 01_busco_results
+
+# Get genome for this array task
+genome=$(sed -n "${PBS_ARRAYID}p" genome_list.txt)
+genome_name=$(basename ${genome} .fasta)
+
+echo "Processing ${genome_name} with $PBS_NUM_PPN threads..."
+
+compleasm run \
+  -a ${genome} \
+  -o 01_busco_results/${genome_name}_compleasm \
+  -l LINEAGE \
+  -t $PBS_NUM_PPN