Question: snpEff killed while reading genome version
10 months ago by
j.lunger18 • 10
j.lunger18 • 10 wrote:
Hello, I'm trying to use snpEff to annotate a vcf file. There are not a lot of hints here, so I'm not sure why this is being killed...
$ java -Xmx8g -jar $SNPEFF_JAR -c $SNPEFF_HOME/snpEff.config -v GRCh38.86 my.vcf > final.vcf 00:00:00 SnpEff version SnpEff 4.3t (build 2017-11-24 10:18), by Pablo Cingolani 00:00:00 Command: 'ann' 00:00:00 Reading configuration file '/usr/local/apps/snpEff/4.3t/snpEff.config'. Genome: 'GRCh38.86' 00:00:00 Reading config file: /usr/local/apps/snpEff/4.3t/snpEff.config 00:00:00 done 00:00:00 Reading database for genome version 'GRCh38.86' from file '/fdb/snpEff/4.3t/data/GRCh38.86/snpEffectPredictor.bin' (this might take a while) Killed
Any help would be greatly appreciated. Thanks!
ADD COMMENT • link •