No result file is generated
zhangyuxin1012 opened this issue · 0 comments
I have been using 3D-DNA to mount Hi-C data, and it has been running for more than 50 days without any output results. I would like to confirm if there is an issue or how to accelerate this process. The genome data is a haplotype HAP1 file generated by the hifiasm software, with a genome size of about 6.7 gigabytes. This is the current log file."
3d.log
/public/home/yudunyang/Tools/3d-dna-201008/run-asm-pipeline.sh -r 2 /public/home/zhangyuxin/Agropyron_cristatum/WHXWZB-2023080085A/raw_data/PB/CCS/MB-89/bam/hifi_fq/01_Assembly/genome/3ddna/juicer/reference/genome.fasta /public/home/zhangyuxin/Agropyron_cristatum/WHXWZB-2023080085A/raw_data/PB/CCS/MB-89/bam/hifi_fq/01_Assembly/genome/3ddna/juicer/aligned/merged_nodups.txt
version: 190716
-r|--rounds flag was triggered, will run 2 round(s) of misjoin correction.
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Starting iterating scaffolding with editing:
...starting round 0 of scaffolding:
:) -p flag was triggered. Running LIGer with GNU Parallel support parameter set to true.
:) -s flag was triggered, starting calculations with 15000 threshold starting contig/scaffold size
:) -q flag was triggered, starting calculations with 1 threshold mapping quality
...Using cprops file: genome.0.cprops
...Using merged_nodups file: genome.mnd.0.txt
...Scaffolding all scaffolds and contigs greater or equal to 15000 bp.
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