Hello, I attempted to input two WGS data sets (two different sets of reads) and a reference genome from NCBI into the BWA-MEM2 tool. The job failed and resulting in the following messages: Execution resulted in the following messages: Fatal error: Exit code 1 () Tool generated the following stan…

Hi @edf393 The FAQs explain what you can do in general to continue working at a public Galaxy server. In short: use an indexed genome as the mapping target (bosTau8 instead) + split the query reads into a collection, run some QA, map, then merge the results. Or, you can consider setting up a priva…

Troubleshooting an error (exit code 1) when performing BWA-MEM2 on WGS data

usegalaxy.org support

jennaj Split this topic September 20, 2023, 9:00pm 4

A post was split to a new topic: Troubleshooting BWA-MEM2 resources under Docker Galaxy

Topic		Replies	Views
Troubleshooting BWA-MEM2 resources under Docker Galaxy mapping , galaxy-docker , bwa_mem2	1	481	September 20, 2023
Map with BWA-MEM problem - An error occurred with this dataset: bam format mapping , bwa-mem	3	109	September 17, 2024
BWA-MEM results in "An error occurred setting metadata for this dataset" usegalaxy.org support metadata , mapping	10	2794	January 21, 2019
running BWA MEM2 on ONT fastq file: https://usegalaxy.eu/jobs/submission/success usegalaxy.eu support tool-help	1	12	February 28, 2025
Fatal error: exit code 1 () using bowtie2 usegalaxy.org support dataset , troubleshooting	3	3015	December 20, 2018

Troubleshooting an error (exit code 1) when performing BWA-MEM2 on WGS data

Related topics