Open LaForever opened 2 months ago
I have no sense about the error. You can just run the command java -jar /public/home/zhaojiale/software/yes/envs/RepCent/lib/python3.8/site-packages/Centromics-0.3-py3.8.egg/Centromics/bin/juicebox_tools.jar dump observed NONE merged_nodups.hic Chr2 Chr6 BP 100000 /public/home/zhaojiale/KLF/centromics/hifihic.tmp/hifihic.hic.matrix/Chr2-Chr6.100000.mat
to debug, or try new version of juicebox_tools (https://github.com/aidenlab/juicer/).
Hello, recently I encountered the same error when running Centromics on different servers. My command is : centromics -l hifi.clean.fasta.gz -g nogap_verkkofilling_Chr1_12.fasta -pre hifihic -hic merged_nodups.hic -tmpdir hifihic.tmp -ncpu 20 Here is the error message: 24-03-12 10:01:54 [INFO] run CMD:
java -jar /public/home/zhaojiale/software/yes/envs/RepCent/lib/python3.8/site-packages/Centromics-0.3-py3.8.egg/Centromics/bin/juicebox_tools.jar dump observed NONE merged_nodups.hic Chr2 Chr9 BP 100000 /public/home/zhaojiale/KLF/centromics/hifihic.tmp/hifihic.hic.matrix/Chr2-Chr9.100000.mat
24-03-12 10:01:55 [WARNING] exit code 1 for CMDjava -jar /public/home/zhaojiale/software/yes/envs/RepCent/lib/python3.8/site-packages/Centromics-0.3-py3.8.egg/Centromics/bin/juicebox_tools.jar dump observed NONE merged_nodups.hic Chr2 Chr6 BP 100000 /public/home/zhaojiale/KLF/centromics/hifihic.tmp/hifihic.hic.matrix/Chr2-Chr6.100000.mat
: 24-03-12 10:01:55 [WARNING]STDOUT:<< HiC file version: 8