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morisUtokyo / mTR

tandem repeat finding from erroneous long reads
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Segmentation fault (core dumped) #4

Open karimi81 opened 3 years ago

karimi81 commented 3 years ago

Hi There, I am trying to use mTR to find tandem repeats in a large genome assembly (2.6 Gb). However, I encountered with following error: line 9: 195240 Segmentation fault (core dumped) ./mTR new_id.fasta Is there any solution to improve the memory utilization of software or to use parallel computation through the command line. Was mTR a suitable choice for large genome? I would be appreciated if you could help me in this regard. Thanks

keko950 commented 3 years ago

Hello, did you find a solution for this?

keko950 commented 3 years ago

https://github.com/keko950/mTR/commit/9cf211af4028682a70f7541db28cbba8835366e4

davidlougheed commented 2 years ago

I get a segfault with at least one of the test sequences (3_10) as well. I can confirm that the solution above removed the segfault.