Open songtaogui opened 6 years ago
Hi @songtaogui what version of bedtools are you using? Do you have the complete log?
I used bedtools v2.25.0, and please find attached the complete log. Is it something wrong with the bedtools I used? I'll update bedtools and try again. Thank you for your reply. run_metaSV.log2.gz
Hi, I'm running metaSV with cmd like:
run_metasv.py --reference /home/gst/work/ref/Zea_mays.AGPv4.dna.toplevel.fa --boost_sc --pindel_vcf Q417_pindel.vcf --breakdancer_vcf Q417_breakdancer.vcf --cnvnator_native Q417_cnvnator.out --manta_vcf Q417_manta.vcf --lumpy_vcf Q417_lumpy.vcf --wham_vcf Q417_whamg.vcf --mean_read_length 150 --sample Q417 --bam /home/gst/work/b73_BWAMEM_bam/Q417_bwa/Q417.bwamem.sort.bam --spades ~/gst/sftw/SPAdes-3.11.1-Linux/bin/spades.py --age ~/gst/sftw/anaconda2/bin/age_align --num_threads 8 --workdir work --outdir out --min_support_ins 4 --max_ins_intervals 500000 --isize_mean 350 --isize_sd 50
and it breaked with error said:
What's the cause of this error?
Thank you!
best wishes,
songtao gui