jeanzzhao

Errors if genome-grist run on Marine metagenomes

25

There were a few errors that happened during `genome-grist` run of Marine metagenomes: `less ~/assloss/grist/marine21/jobs/grist.j56313129.err` - SRR9178284, error in rule`samtools_count_wc`, `bam_to_depth_wc`, `bam_to_fastq_wc` ``` ... [Thu Nov 24 07:14:11 2022] Error...

filesystem latency error

8

One of my genome-grist runs on 21 Marine metagenome samples failed due to a **filesystem latency** error. ```== less /home/zyzhao/assloss/grist/marine21/.snakemake/log/2022-11-01T121117.233778.snakemake.log ... jobid: 5 wildcards: sample=SRR12479851 threads: 6 resources: tmpdir=/tmp, mem_mb=40000...

out-of-memory error

2

One of my genome-grist runs on 24 human host-associated samples failed due to `out-of-memory` error. `less /home/zyzhao/2022-assemblyloss/trials/3_ERR_Mgnify/grist/jobs/grist.j53330088.err` ``` ... Write-protecting output file outputs.24samples/abundtrim/ERR505092.abundtrim.fq.gz. [Tue Aug 16 13:29:44 2022] Finished job...