Henk den Bakker

icon company Center for Food Safety, University of Georgia icon location Griffin, GA, USA

Results 2 issues of Henk den Bakker

missing / / in run_indep_wkflow_with_gnu_par.pl

Got this error: cat: out_NWcombine/list_args_for_final_step: No such file or directory ls: cannot access out_NW/_/union_calls/_vcf: No such file or directory /home/henk/vcftoolsperl/vcf-merge out_NW/_/union_calls/_vcf.gz > out_NWEnt_NW.combined.vcf sh: 1: /home/henk/vcftoolsperl/vcf-merge: not found Errors are...

problem with run_indep_wkflow_with_gnu_par.pl

8 comment

perl /home/henk/cortex/scripts/calling/run_indep_wkflow_with_gnu_par.pl --index subclade_index.txt --ref /home/henk/outbryk/species/Listeria/refdata/LmonoJ2_064.fasta --dir_for_ref_objects ref_new_wrapper --vcftools_dir /home/henk/vcftools --outdir out_NW --stampy_bin /home/henk/stampy-1.0.23/stampy.py --kmer 31 --procs 30 --prefix Lmono_NW Use of uninitialized value $line in scalar chomp at /home/henk/cortex/scripts/calling/build_samples_parallel.pl...