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I have a very large alignment (3 million base pair) which I can successfully run on coevol 1.4b. However, each cycle is taking about 1500 seconds. I want to use coevol 1.5 as it is able to parallelize things. I have successfully compiled coevol 1.5 (no errors) on my MacOs (Sierra) server.
However, when I tried to run the test data:
cd coevol/data/plac
./script
I found the following error:
random seed : 191227
Coevol version 1.5
tree and data ok
process RESET
Maturity : 9 out of 73 missing
Mass : 4 out of 73 missing
Longevity : 9 out of 73 missing
mapping freq : 0.2
[server-macPro-2:95464] *** Process received signal ***
[server-macPro-2:95464] Signal: Segmentation fault: 11 (11)
[server-macPro-2:95464] Signal code: Address not mapped (1)
[server-macPro-2:95464] Failing at address: 0x10
[server-macPro-2:95464] [ 0] 0 libsystem_platform.dylib 0x00007fffdd5d701a _sigtramp + 26
[server-macPro-2:95464] [ 1] 0 ??? 0x0000000000000000 0x0 + 0
[server-macPro-2:95464] [ 2] 0 coevol 0x0000000104621dd3 _ZN25PathConjugatePhyloProcess26CreateRandomBranchSitePathEPK4Linki + 707
[server-macPro-2:95464] [ 3] 0 coevol 0x0000000104670fff _ZN12PhyloProcess15RecursiveCreateEPK4Link + 159
[server-macPro-2:95464] [ 4] 0 coevol 0x00000001046716b5 _ZN12PhyloProcess6UnfoldEv + 213
[server-macPro-2:95464] [ 5] 0 coevol 0x00000001046385c8 _ZN37ConjugateBranchOmegaMultivariateModelC2ENSt3__112basic_stringIcNS0_11char_traitsIcEENS0_9allocatorIcEEEES6_S6_S6_ddiddddS6_iiibidiibbbbiiS6_S6_iiiS6_S6_bbbiiiii15GeneticCodeType + 17384
[server-macPro-2:95464] [ 6] 0 coevol 0x00000001045ce5ed _ZN28BranchOmegaMultivariateChain3NewEi + 1021
[server-macPro-2:95464] [ 7] 0 coevol 0x00000001046507f3 _ZN28BranchOmegaMultivariateChainC2ENSt3__112basic_stringIcNS0_11char_traitsIcEENS0_9allocatorIcEEEES6_S6_S6_ddiddddS6_iiiS6_bb15GeneticCodeTypebidiibbbbiiS6_S6_iiiS6_S6_bbbiiiii + 963
[server-macPro-2:95464] [ 8] 0 coevol 0x00000001045cb351 main + 11233
[server-macPro-2:95464] [ 9] 0 libdyld.dylib 0x00007fffdd3cc285 start + 1
[server-macPro-2:95464] *** End of error message ***
./script: line 1: 95464 Segmentation fault: 11 ../coevol -f -d plac.ali -t plac.tree -c plac.lht -cal plac.calib 100 100 -dsom essaicoevoldsom1
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