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alekseyzimin / masurca

GNU General Public License v3.0
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Output directory for chromosome scaffolder tool #338

Open dr-ashu-geno opened 7 months ago

dr-ashu-geno commented 7 months ago

Hi Thank you for developing masurca..

Is there any way to direct the output of chromosome scaffolder tool to a directory? Currently, the output is written to files in the working directory but I have a few samples to run this tool on and I am worried they will overwrite outputs files with the same names..

Thank you in advance

kullrich commented 6 months ago

Maybe you could write a small wrapper sh script that creates a directory for each sample that you have which would put a symlink 'ln -s ../REFERENCE.fasta ./REFERENCE.fasta' into that directory. Than you can run all your samples without having the issue to overwrite. Best regards Kristian