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KolmogorovLab / hapdup

Pipeline to convert a haploid assembly into diploid
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Docker installation problem #16

Closed rpzhao closed 2 years ago

rpzhao commented 2 years ago

I followed the tutorial and used Docker to install. The following question arises. HD_DIR=pwd docker run -v $HD_DIR:$HD_DIR -u id -u:id -g mkolmogo/hapdup:0.7 \ hapdup --assembly a.contigs.fasta --bam lr_mapping.bam --out-dir hapdup-1 -t 2 --rtype hifi Traceback (most recent call last): File "/usr/local/bin/hapdup", line 8, in sys.exit(main()) File "/usr/local/lib/python3.8/dist-packages/hapdup/main.py", line 102, in main os.mkdir(args.out_dir) PermissionError: [Errno 13] Permission denied: 'hapdup-1'

rpzhao commented 2 years ago

I solved the problem.It simply adds the absolute path to each file.Thanks!

Andreas-Bio commented 11 months ago

I get the same error. I don't understand what "It simply adds the absolute path" means. What was the fix?