Open Hongchang-Gu opened 5 years ago
I urgently need to solve this problem, I hope I can get help, thank you.
Issue 1: You tried to allocate more mem than physical mem, check your physical mem and reserve some for usage beyond heap Issue 2: The mem you allocated is too small, just increase it, if you don't have enough physical mem, you have to use a more powerful server.
hello,excuse me! last week I try to use pilon so as to polish my SMRT assembled contigs.
this is my command:
java -jar -Xmx128G pilon-1.23.jar --genome ../pacbio/contigs/sx2.contigs.fasta --frags ../pacbio/contigs/sx_bwa.bam --output sx_pilon_cycle1 --outdir ../pacbio/contigs/sx_pilon --threads 24
and we could find the error as following:
I think maybe the memory or the threads that I set is too high , resulting in insufficient server CPU. So I try to reduce my memory and threads, this error always exits until I lowered the parameter to
-Xxm48G
. Unfortunately, another error occurred at this time.I am helpless with this mistake. HOW SHOULD I DO? What caused this error?
So I hope someone can help me. I will appreciate it if someone can help me solve this problem!
THX A LOT!