Hi everyone, I am trying to run MimodD extract variant sites tool with default settings in Galaxy.org and I got the below error for a week ago. I have used this tool many times and it has worked…
Fatal error: Exit code 127 ()
/corral4/main/jobs/051/284/51284803/tool_script.sh: line 10: mimodd: command not found
I first aligned my fastq file using Map with BWA-MEM tool, then ran FilterBAM, MarkDuplicates, CleanSAM, Realign reads, MimodD Variant calling, and then tried to MimodD extract variant sites.
I re-ran it several times, but got same error, tried to run this tool with the data that worked in the past, but got same error now.
Could you help me?
Thank you!
Here is the bug report
Detailed Job Information
Job environment and execution information is available at the job info page.
| Job ID | 51284803 (bbd44e69cb8906b5ca7ad95501fbcc85) |
|---|---|
| Tool ID | toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_varextract/0.1.9 |
| Tool Version | 0.1.9 |
| Job PID or DRM id | 42890615 |
| Job Tool Version | /corral4/main/jobs/051/284/51284803/tool_script.sh: line 9: mimodd: command not found |
Job Execution and Failure Information
Command Line
mimodd varextract ‘/corral4/main/objects/3/a/b/dataset_3ab6f1f4-e4f9-4f97-9ef1-f70de1dbe8c5.dat’ --ofile ‘/corral4/main/objects/6/0/6/dataset_6069d9c4-28b2-40b3-868f-cba502a72c30.dat’ --verbose
stderr
/corral4/main/jobs/051/284/51284803/tool_script.sh: line 10: mimodd: command not found
stdout
Job Information
None
Job Traceback
None