fpusan
commented
1 year ago See https://github.com/voutcn/megahit/issues/272#issuecomment-643017856
-9 means that the program was killed by SIGKILL. If you are using a server that is managed by another system (e.g. an admin is managing the server by some cluster management system, or this program/container was run by docker/k8s with CPU/memory limits), the program will be killed if it exceeds the memory It is also possible that you share the server with other users, and other users (with root permission) can manually send SIGKILL to kill your process.
Hello, I am new to SqueezeMeta, Why when every time it creates the assemblies it stops at k=21 and doesn't continue executing the program? Error running command: /appli/conda-env/bioinfo/squeezemeta-1.6.1/SqueezeMeta/bin/megahit/megahit -1 /home3/datawork/apurielh/MetagenOIL/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/data/raw_fastq/par1.fastq.gz -2 /home3/datawork/apurielh/MetagenOIL/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/data/raw_fastq/par2.fastq.gz -t 32 -o /home3/datawork/apurielh/MetagenOIL/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/data/megahit >> /home3/datawork/apurielh/MetagenOIL/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/syslog 2>&1 at /appli/conda-env/bioinfo/squeezemeta-1.6.1/SqueezeMeta/lib/SqueezeMeta/assembly_megahit.pl line 36. Assembly not present in /home3/datawork/apurielh/MetagenOIL/runpool090715_2/Project_MetagenOIL.489/Run_pool.7385/metagenomic715_2/results/01.metagenomic715_2.fasta, exiting [31mStopping in STEP1 -> 01.run_all_assemblies.pl. Program finished abnormally
syslog.zip