Question: Error during running Trinity
gravatar for baffiak1902
10 weeks ago by
baffiak190210 wrote:


I have problem during running of the Trinity. It's fail with this error message:

Error, cmd: /home/pavel/Trinity-v2.8.4/trinity-plugins/BIN/ParaFly -c recursive_trinity.cmds -CPU 10 -v -shuffle  died with ret 256 at /home/pavel/Trinity-v2.8.4/Trinity line 2689.
    main::process_cmd("/home/pavel/Trinity-v2.8.4/trinity-plugins/BIN/ParaFly -c rec"...) called at /home/pavel/Trinity-v2.8.4/Trinity line 3354
    main::run_partitioned_cmds("recursive_trinity.cmds") called at /home/pavel/Trinity-v2.8.4/Trinity line 2334
    main::run_recursive_trinity("/mnt/d/20190401_sturgeon/trinity_de_novo/chrysalis/readsToCom"...) called at /home/pavel/Trinity-v2.8.4/Trinity line 2087
    main::run_chrysalis("/mnt/d/20190401_sturgeon/trinity_de_novo/inchworm.K25.L25.fa", "/mnt/d/20190401_sturgeon/trinity_de_novo/both.fa", 300, 500, "RF", "/mnt/d/20190401_sturgeon/trinity_de_novo/both.fa", "/mnt/d/20190401_sturgeon/trinity_de_novo/both.fa") called at /home/pavel/Trinity-v2.8.4/Trinity line 1706
    main::run_Trinity() called at /home/pavel/Trinity-v2.8.4/Trinity line 1345
    eval {...} called at /home/pavel/Trinity-v2.8.4/Trinity line 1344

Trinity run failed. Must investigate error above.

Do you have any idea, how to solve it, or where is the error?


trinity software error • 106 views
ADD COMMENTlink modified 10 weeks ago • written 10 weeks ago by baffiak190210

What was your command ? Paste it here

ADD REPLYlink written 10 weeks ago by Vijay Lakhujani4.2k
~/Trinity-v2.8.4/Trinity --seqType fq --max_memory 120G --samples_file samples_trinity.txt --SS_lib_type RF --CPU 10 --min_contig_length 300 --output trinity_de_novo --bflyCPU 10 --bflyHeapSpaceMax 10G;
ADD REPLYlink written 10 weeks ago by baffiak190210
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