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devosoft / avida

http://avida.devosoft.org
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Every time I use the Horizontal Gene Transfer I get segmentation fault, no matter what other variables I adjust? #47

Closed rgvogel closed 7 months ago

voidptr commented 6 years ago

Would you please provide your configuration files? What platform/compiler are you using?

rgvogel commented 6 years ago

Compiler: cmake 2.8.12.2

Platform: Red hat, Centos 7

./avida -s $seed 51 -set COPY_MUT_PROB .0008 -set WORLD_X 100 -set WORLD_Y 100 -set ENABLE_HGT 1 -set EVENT_FILE andEvents.cfg -def INST_SET instset-heads.cfg -set ENVIRONMENT_FILE environment.cfg

Cfg.zip

voidptr commented 6 years ago

I think there's a problem with your config files. Try mine, and see if they do better. You'll also want to compile using my latest source from the following repo and branch: https://github.com/voidptr/avida/tree/HGT_Master

The HGT implementation in the master Avida branch/repo is extremely old and buggy.

Once you've got the code compiled, and the config files in place, you can run a simple HGT and changing environments experiment with:

./avida -v4 -set HGT_UPTAKE_RECOMBINATION_P 0.1 -set ENVIRONMENT_FILE environment__bonus0.cfg -set EVENT_FILE events_ce.cfg

101_GrazingHypothesis_vs_CE_CEOnly.zip

There are other examples of experimental treatments you can run in the run_list file, but omit the -s $seed portion, since those are for running on our cluster. Instead, you may say -s 100 (or whatever other number you want).

mmore500 commented 7 months ago

I added crash backtraces earlier this year, which should provide some better information to track down the source of the issue in case this occurs in the future. Closing the issue for now