issue with running Crispr_DART pipeline #4
Description
Hi,
I tried to install Crispr_DART tool and its related dependency programs. I also downloaded separately GATK-v3.8-0-ge9d806836 and extracted the zip folder after which i got only GenomeAnalysisTK.jar file inside the folder. Next, I gave path for java and gatk in settings.yaml file along with all input files location as well as output directory. Finally when I tried to execute the program. It did not output any result files in the output gatk subfolder created inside the parent output folder Crispr_DART. When I checked the log files generated for gatk step, it was showing following error.
ERROR StatusLogger Unable to create class org.apache.logging.log4j.core.impl.Log4jContextFactory specified in jar:file:/data/ngs/programs/crispr_DART/tool_gatk_3.8/GenomeAnalysisTK-3.8-0-ge9d806836/GenomeAnalysisTK.jar!/META-INF/log4j-provider.properties
ERROR StatusLogger Log4j2 could not find a logging implementation. Please add log4j-core to the classpath. Using SimpleLogger to log to the console...
Please help me to resolve the issue and generate complete result files.
Thanks
Nihar