Error Thread 5 terminated abnormally

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Carlos Mario Ospina Varon

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Feb 1, 2022, 11:23:42 PM2/1/22

to trinityrnaseq-users

Hi People, i was trying to run this command "Trinity --seqType fq --max_memory 25G --samples_file rnaseq_rhodnius.txt --SS_lib_type RF --CPU 6" and i had the error that you can see in the first image attached. someone can please help me with that error. Thanks.

785b0310-05f2-4e1f-8c4d-41aee2caac11.jfif

The rnaseq_rhodnius.txt file contains the path to find the forward and reverse files of three biological replicas of two different species (Rhodnius prolixus and Rhodnius colombiensis). in total 12 files. I organize the rnaseq_rhodnius.txt file as follows:

Brian Haas

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Feb 3, 2022, 10:56:42 AM2/3/22

to Carlos Mario Ospina Varon, trinityrnaseq-users

hi,

it looks like it might be an out of memory issue. I see you're indicating 25G. If your running it on a machine that only has 25G available to the job, it might have gone over. Try keeping the --max_memory less than what your full memory allocation is just to be safe.

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