[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 158274 sequences (23899374 bp)...
[M::mem_process_seqs] Processed 158274 reads in 154.346 CPU sec, 7.223 real sec
[main] Version: 0.7.12-r1039
[main] CMD: /mnt/storage/home/manuriddinov/Distributive/bwa-0.7.15/bwa mem -t 23 /mnt/scratch/ws/sykozyreva/202312241214milk/fasta/GRCm38.p6/GRCm38.p6.genome.fa /mnt/scratch/ws/sykozyreva/202312241214milk/CapH/A/CapH2_C_r1/splits/CapH2_C_r1_L001_R1_001.fastq.gz
[main] Real time: 19.438 sec; CPU: 157.016 sec
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 158274 sequences (23899374 bp)...
[M::mem_process_seqs] Processed 158274 reads in 157.616 CPU sec, 7.262 real sec
[main] Version: 0.7.12-r1039
[main] CMD: /mnt/storage/home/manuriddinov/Distributive/bwa-0.7.15/bwa mem -t 23 /mnt/scratch/ws/sykozyreva/202312241214milk/fasta/GRCm38.p6/GRCm38.p6.genome.fa /mnt/scratch/ws/sykozyreva/202312241214milk/CapH/A/CapH2_C_r1/splits/CapH2_C_r1_L001_R2_001.fastq.gz
[main] Real time: 10.557 sec; CPU: 160.239 sec
Picked up _JAVA_OPTIONS: -Xmx16384m
Picked up _JAVA_OPTIONS: -Xmx16384m
Error while reading graphs file: java.io.FileNotFoundException: /mnt/scratch/ws/sykozyreva/202312241214milk/CapH/A/CapH2_C_r1/aligned/CapH2_C_r1.hic_.m (No such file or directory)
Picked up _JAVA_OPTIONS: -Xmx16384m
Picked up _JAVA_OPTIONS: -Xmx16384m