Closed tseemann closed 3 years ago
Please check if the folder in -d exists before running? Or use ln -s -f to force?
-d
ln -s -f
./SeqSero2_package.py -t 4 -i /path/contigs.fa -d 2018-20708 -p 8 -m k ln: failed to create symbolic link ‘2018-20708/H_and_O_and_specific_genes.fasta’: File exists ln: failed to create symbolic link ‘2018-20708/contigs.fa’: File exists Traceback (most recent call last): File "./SeqSero2_package.py", line 1423, in <module> main() File "./SeqSero2_package.py", line 1248, in main subprocess.check_call("ln -sr "+dirpath+"/"+database+" "+" ".join(input_file)+" "+make_dir,shell=True) File "/home/linuxbrew/.linuxbrew/Cellar/python/3.7.3/lib/python3.7/subprocess.py", line 347, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command 'ln -sr /home/tseemann/git/SeqSero2/H_and_O_and_specific_genes.fasta /home/seq/MDU/QC/2018-20708/contigs.fa 2018-20708' returned non-zero exit status 1.
Hi Torsten, all of them are good suggestions. We will begin to fix them and clean all bugs reports. Thanks.
Please check if the folder in
-d
exists before running? Or useln -s -f
to force?