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mitoNGS / MToolBox

A bioinformatics pipeline to analyze mtDNA from NGS data
http://sourceforge.net/projects/mtoolbox/?source=navbar
GNU General Public License v3.0
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No such file or directory: 'VCF_dict_tmp' #86

Open PengZhangJHU opened 4 years ago

PengZhangJHU commented 4 years ago

I'm using MToolBox v1.2, and when I tested on the /test/sim_data that came with the download the software, I got the following error. I saw this error has come up in earlier posts but don't find a solution to it. Anyone has suggestions? Thank you!

MToolBox.sh -i test_config.sh &> sim_data_run.log

ASSEMBLING MT GENOMES WITH ASSEMBLEMTGENOME...

WARNING: values of tail < 5 are deprecated and will be replaced with 5

Human genome indices do not exist. Run samtools faidx fist.

GENERATING VCF OUTPUT...

Traceback (most recent call last): File "/mnt/research/statgen/mitoAnalyzer/MToolBox-master/MToolBox/VCFoutput.py", line 36, in VCF_dict = ast.literal_eval(open('VCF_dict_tmp', 'r').read()) IOError: [Errno 2] No such file or directory: 'VCF_dict_tmp'

smukh18 commented 4 years ago

How was this solved?

jerkonej commented 4 years ago

I found the issue to be with the NcursesW library installation. when installed separately and re-installed MToolBox, everything works fine.