MEME


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Working on site pattern 405/1131 in partition 1HYPHYMPI terminated.
Error:
Internal error 
Constrained optimization failed, since a starting point within the domain specified for the variables couldn't be found.
Set it by hand, or check your constraints for compatibility.
Failed constraint:meme.site_tree_bsrel.Node6.alpha:=6.647424809634686*3009.860897862589 must be in [1e-08,1]. Current value = 0.25.

Function call stack
1 :  [namespace = fLqcMNVQ] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CTG\n CCG\n CCG\n AAA\n CCG\n AGC\n CCG\n AAA\n AGC\n GAA\n CCG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    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rate":"alpha"}},"post-definition":"models.codon.BS_REL.post_definition","q_ij":"MQNhqMhA.rate_generator","reversible":1,"set-branch-length":"models.codon.BS_REL.set_branch_length","stop":{{"TAA","TAG","TGA"}},"time":"models.BS_REL.Time","translation-table":{"AAA":"K","AAC":"N","AAG":"K","AAT":"N","ACA":"T","ACC":"T","ACG":"T","ACT":"T","AGA":"R","AGC":"S","AGG":"R","AGT":"S","ATA":"I","ATC":"I","ATG":"M","ATT":"I","CAA":"Q","CAC":"H","CAG":"Q","CAT":"H","CCA":"P","CCC":"P","CCG":"P","CCT":"P","CGA":"R","CGC":"R","CGG":"R","CGT":"R","CTA":"L","CTC":"L","CTG":"L","CTT":"L","GAA":"E","GAC":"D","GAG":"E","GAT":"D","GCA":"A","GCC":"A","GCG":"A","GCT":"A","GGA":"G","GGC":"G","GGG":"G","GGT":"G","GTA":"V","GTC":"V","GTG":"V","GTT":"V","TAA":"X","TAC":"Y","TAG":"X","TAT":"Y","TCA":"S","TCC":"S","TCG":"S","TCT":"S","TGA":"X","TGC":"C","TGG":"W","TGT":"C","TTA":"L","TTC":"F","TTG":"L","TTT":"F"},"type":"local"}},{"BG":{"non-synonymous rate":{"LB":null,"UB":100000,"constraint":"'meme.site_beta_nuisance*(' + branch_length + ')'","init":0,"local":"beta","scaler":"meme.site_beta_nuisance"},"synonymous rate":{"LB":null,"UB":10000,"constraint":"'meme.site_alpha*(' + branch_length + ')'","init":1,"local":"alpha","scaler":"meme.site_alpha"}},"FEL-FG":{"non-synonymous rate":{"LB":null,"UB":100000,"constraint":"'meme.site_beta_plus*(' + branch_length + ')'","init":0.9996023654987386,"local":"beta","scaler":"meme.site_beta_plus"},"synonymous rate":{"LB":null,"UB":10000,"constraint":"'meme.site_alpha*(' + branch_length + ')'","init":1,"local":"alpha","scaler":"meme.site_alpha"}},"FG":{"Mixture auxiliary weight for category 1":{"LB":1e-08,"UB":1,"constraint":"'meme.weight_1'","init":null,"local":"bsrel_mixture_aux_0","scaler":"meme.weight_1"},"non-synonymous rate for category 1":{"LB":0,"UB":1,"constraint":"'meme.site_alpha*meme.site_omega_1*(' + branch_length + ')'","init":null,"local":"beta_1","scaler":"meme.site_omega_1"},"non-synonymous rate for category 2":{"LB":null,"UB":100000,"constraint":"'meme.site_beta_plus*(' + branch_length + ')'","init":null,"local":"beta_2","scaler":"meme.site_beta_plus"},"synonymous rate":{"LB":null,"UB":10000,"constraint":"'meme.site_alpha*(' + branch_length + ')'","init":null,"local":"alpha","scaler":"meme.site_alpha"}},"OMEGA":{"rates":{"0":"meme.site_omega_1","1":"meme.site_beta_plus"},"weights":{"0":"meme.weight_1"}},"OMEGA_DIST":{"0":"1*meme.weight_1","1":"1*(1-meme.weight_1)"}},0);
-------


--------------------------------------------------------------------------
MPI_ABORT was invoked on rank 2 in communicator MPI_COMM_WORLD
with errorcode 1.

NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.
You may or may not see output from other processes, depending on
exactly when Open MPI kills them.
--------------------------------------------------------------------------

Working on site pattern 406/1131 in partition 1HYPHYMPI terminated.
Error:
HyPhy killed by signal 15


HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = oifYhuQO] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GCG\n AGC\n AGC\n TTT\n AGC\n CTG\n AGC\n TTT\n CGC\n GAA\n AGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":5,"AAC":1,"AAG":1,"AAT":1,"ACA":1,"ACC":2},"is_constant":0,"sites":{"0":401}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.tHYPHYMPI terminated.
Error:
HyPhy killed by signal 15

Function call stack
1 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CAG\n GGC\n GGC\n AAC\n GGC\n CGC\n GGC\n AAC\n AGC\n CCG\n GGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":2,"AAC":1,"AAG":1,"AAT":1,"ACA":1,"ACC":5},"is_constant":0,"sites":{"0":406}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","memeHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = fCfXBAFL] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n ACC\n CCG\n CCG\n AAA\n CCG\n CCG\n CCG\n AAA\n AGC\n CCG\n CCG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":2,"AAC":1,"AAG":1,"AAT":7},"is_constant":0,"sites":{"0":388}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fe[n6:31878] *** Process received signal ***
[n6:31878] Signal: Segmentation fault (11)
[n6:31878] Signal code: Address not mapped (1)
[n6:31878] Failing at address: 0x2a
[n6:31878] [ 0] /lib64/libpthread.so.0(+0xf630)[0x7fead200e630]
[n6:31878] [ 1] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global23ConstructAnErrorMessageERK7_String+0x257)[0x3439c7]
[n6:31878] [ 2] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global22HandleApplicationErrorERK7_Stringbb+0x2a7)[0x341a77]
[n6:31878] [ 3] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction17_TerminateAndDumpERK7_Stringb+0xdb)[0x35f79b]
[n6:31878] [ 4] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z21hyphy_sigterm_handleri+0x7c)[0x4f4b1c]
[n6:31878] [ 5] /lib64/libc.so.6(+0x36400)[0x7fead1447400]
[n6:31878] [ 6] /lib64/libc.so.6(+0x14cfcb)[0x7fead155dfcb]
[n6:31878] [ 7] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN7_Matrix7MultObjEP11_MathObjectS1_+0x131)[0x3858a1]
[n6:31878] [ 8] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x80d)[0x3c028d]
[n6:31878] [ 9] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x286)[0x32fcd6]
[n6:31878] [10] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9_CalcNode15RecomputeMatrixEllP7_MatrixP5_ListP11_SimpleListS3_b+0x1d4)[0x307a34]
[n6:31878] [11] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_TheTree20ExponentiateMatricesER5_Listll+0x403)[0x40b633]
[n6:31878] [12] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction12ComputeBlockElPdllP11_SimpleList+0x90d)[0x35eb9d]
[n6:31878] [13] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction7ComputeEv+0x7ae)[0x3483ee]
[n6:31878] [14] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction13SimplexMethodERdmm+0x13c1)[0x36aab1]
[n6:31878] [15] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction8OptimizeEPK16_AssociativeList+0x1d70)[0x34a7d0]
[n6:31878] [16] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand30HandleOptimizeCovarianceMatrixER14_ExecutionListb+0x167)[0x2f18a7]
[n6:31878] [17] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31878] [18] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x9f5)[0x3c0475]
[n6:31878] [19] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x18e)[0x32fbde]
[n6:31878] [20] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand7ExecuteER14_ExecutionList+0x4ef)[0x2d3bcf]
[n6:31878] [21] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31878] [22] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z13mpiNormalLoopiiR7_String+0x389)[0x4ebfb9]
[n6:31878] [23] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(main+0xb3b)[0x4f6e8b]
[n6:31878] [24] /lib64/libc.so.6(__libc_start_main+0xf5)[0x7fead1433555]
[n6:31878] [25] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI[0x2c09e9]
[n6:31878] *** End of error message ***
HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = tgOPg_wE] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CTG\n GGC\n GGC\n AGC\n GAA\n AGC\n GAA\n AGC\n AGC\n CAG\n GGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":4,"AAC":1,"AAG":1,"AAT":2,"ACA":3},"is_constant":0,"sites":{"0":366}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.backgHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = JJjpaCJm] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n ACC\n TTT\n TTT\n GCG\n TTT\n CCG\n TTT\n GCG\n AAA\n GAT\n TTT;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":1,"AAG":1,"AAT":1,"ACA":2,"ACC":5},"is_constant":0,"sites":{"0":395}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","me[n6:31883] *** Process received signal ***
[n6:31883] Signal: Segmentation fault (11)
[n6:31883] Signal code: Address not mapped (1)
[n6:31883] Failing at address: 0x28
[n6:31883] [ 0] /lib64/libpthread.so.0(+0xf630)[0x7f7a2f79e630]
[n6:31883] [ 1] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global23ConstructAnErrorMessageERK7_String+0x257)[0x3439c7]
[n6:31883] [ 2] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global22HandleApplicationErrorERK7_Stringbb+0x2a7)[0x341a77]
[n6:31883] [ 3] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction17_TerminateAndDumpERK7_Stringb+0xdb)[0x35f79b]
[n6:31883] [ 4] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z21hyphy_sigterm_handleri+0x7c)[0x4f4b1c]
[n6:31883] [ 5] /lib64/libc.so.6(+0x36400)[0x7f7a2ebd7400]
[n6:31883] [ 6] /lib64/libc.so.6(+0x14cfa0)[0x7f7a2ecedfa0]
[n6:31883] [ 7] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN7_Matrix7MultObjEP11_MathObjectS1_+0x131)[0x3858a1]
[n6:31883] [ 8] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x80d)[0x3c028d]
[n6:31883] [ 9] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x286)[0x32fcd6]
[n6:31883] [10] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9_CalcNode15RecomputeMatrixEllP7_MatrixP5_ListP11_SimpleListS3_b+0x1d4)[0x307a34]
[n6:31883] [11] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_TheTree20ExponentiateMatricesER5_Listll+0x403)[0x40b633]
[n6:31883] [12] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction12ComputeBlockElPdllP11_SimpleList+0x90d)[0x35eb9d]
[n6:31883] [13] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction7ComputeEv+0x7ae)[0x3483ee]
[n6:31883] [14] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction13SimplexMethodERdmm+0x1079)[0x36a769]
[n6:31883] [15] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction8OptimizeEPK16_AssociativeList+0x1d70)[0x34a7d0]
[n6:31883] [16] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand30HandleOptimizeCovarianceMatrixER14_ExecutionListb+0x167)[0x2f18a7]
[n6:31883] [17] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31883] [18] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x9f5)[0x3c0475]
[n6:31883] [19] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x18e)[0x32fbde]
[n6:31883] [20] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand7ExecuteER14_ExecutionList+0x4ef)[0x2d3bcf]
[n6:31883] [21] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31883] [22] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z13mpiNormalLoopiiR7_String+0x389)[0x4ebfb9]
[n6:31883] [23] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(main+0xb3b)[0x4f6e8b]
[n6:31883] [24] /lib64/libc.so.6(__libc_start_main+0xf5)[0x7f7a2ebc3555]
[n6:31883] [25] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI[0x2c09e9]
[n6:31883] *** End of error message ***
HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = JzDrWQbq] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GAT\n GGC\n GGC\n CTG\n GGC\n GCG\n GGC\n CTG\n GAA\n GTG\n GGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":2,"AAC":1,"AAG":1,"AAT":1,"ACA":5,"ACC":1},"is_constant":0,"sites":{"0":392}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = UcYZdEDc] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead"});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GGC\n GAA\n GAA\n GAA\n GAA\n ATG\n GAA\n GAA\n GGC\n AGC\n GAA;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":1,"AAG":7,"AAT":2},"is_constant":0,"sites":{"0":374}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","",HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = ubAevnYy] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GGC\n CTG\n CTG\n CTG\n CTG\n AGC\n CTG\n CTG\n CCG\n CAG\n CTG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":1,"AAG":1,"AAT":7,"ACA":1},"is_constant":0,"sites":{"0":402}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = jXVDnHUN] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead"});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GTG\n CCG\n CCG\n CTG\n CCG\n ACC\n CCG\n CTG\n CCG\n AGC\n CCG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":1,"AAG":6,"AAT":2,"ACA":1},"is_constant":0,"sites":{"0":386}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","HYPHYMPI terminated.
Error:
HyPhy killed by signal 15


HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = qksOchSA] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GTG\n GAT\n GAT\n GCG\n GAT\n AGC\n GAT\n GCG\n GTG\n AGC\n GAT;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":2,"AAC":5,"AAG":2,"AAT":2},"is_constant":0,"sites":{"0":390}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_feHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = InyQUno_] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n AGC\n GGC\n GGC\n CAG\n GGC\n CTG\n GGC\n CAG\n AGC\n CGC\n GGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":2,"AAC":2,"AAG":1,"AAT":1,"ACA":5},"is_constant":0,"sites":{"0":403}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = BKUbrcqh] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CCG\n CAG\n CAG\n ATT\n CAG\n TTT\n CAG\n ATT\n GCG\n AGC\n CAG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":2,"AAG":5,"AAT":1,"ACA":1,"ACC":1},"is_constant":0,"sites":{"0":396}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.tHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = dZdMXlaH] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GAA\n GCG\n GCG\n GTG\n GCG\n GAT\n GCG\n GTG\n TTT\n CCG\n GCG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":1,"AAG":1,"AAT":5,"ACA":2,"ACC":1},"is_constant":0,"sites":{"0":391}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meHYPHYMPI terminated.
Error:
HyPhy killed by signal 15


HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = kHvNOxMx] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CCG\n AGC\n AGC\n GAT\n AGC\n CAG\n AGC\n GAT\n AAA\n AAA\n AGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":2,"AAC":5,"AAG":1,"AAT":1,"ACA":2},"is_constant":0,"sites":{"0":397}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.backgHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = GJvAfWJA] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CCG\n AGC\n AGC\n CAT\n AGC\n GGC\n AGC\n CAT\n CTG\n CCG\n AGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":5,"AAC":2,"AAG":2,"AAT":1,"ACA":1},"is_constant":0,"sites":{"0":404}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*[n6:31898] *** Process received signal ***
[n6:31898] Signal: Segmentation fault (11)
[n6:31898] Signal code: Address not mapped (1)
[n6:31898] Failing at address: 0x28
[n6:31898] [ 0] /lib64/libpthread.so.0(+0xf630)[0x7fba89688630]
[n6:31898] [ 1] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global23ConstructAnErrorMessageERK7_String+0x257)[0x3439c7]
[n6:31898] [ 2] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global22HandleApplicationErrorERK7_Stringbb+0x2a7)[0x341a77]
[n6:31898] [ 3] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction17_TerminateAndDumpERK7_Stringb+0xdb)[0x35f79b]
[n6:31898] [ 4] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z21hyphy_sigterm_handleri+0x7c)[0x4f4b1c]
[n6:31898] [ 5] /lib64/libc.so.6(+0x36400)[0x7fba88ac1400]
[n6:31898] [ 6] /lib64/libc.so.6(+0x14cfd5)[0x7fba88bd7fd5]
[n6:31898] [ 7] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN7_Matrix7MultObjEP11_MathObjectS1_+0x131)[0x3858a1]
[n6:31898] [ 8] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x80d)[0x3c028d]
[n6:31898] [ 9] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x286)[0x32fcd6]
[n6:31898] [10] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9_CalcNode15RecomputeMatrixEllP7_MatrixP5_ListP11_SimpleListS3_b+0x1d4)[0x307a34]
[n6:31898] [11] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_TheTree20ExponentiateMatricesER5_Listll+0x403)[0x40b633]
[n6:31898] [12] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction12ComputeBlockElPdllP11_SimpleList+0x90d)[0x35eb9d]
[n6:31898] [13] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction7ComputeEv+0x7ae)[0x3483ee]
[n6:31898] [14] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction13SimplexMethodERdmm+0x1079)[0x36a769]
[n6:31898] [15] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction8OptimizeEPK16_AssociativeList+0x1d70)[0x34a7d0]
[n6:31898] [16] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand30HandleOptimizeCovarianceMatrixER14_ExecutionListb+0x167)[0x2f18a7]
[n6:31898] [17] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31898] [18] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x9f5)[0x3c0475]
[n6:31898] [19] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x18e)[0x32fbde]
[n6:31898] [20] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand7ExecuteER14_ExecutionList+0x4ef)[0x2d3bcf]
[n6:31898] [21] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31898] [22] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z13mpiNormalLoopiiR7_String+0x389)[0x4ebfb9]
[n6:31898] [23] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(main+0xb3b)[0x4f6e8b]
[n6:31898] [24] /lib64/libc.so.6(__libc_start_main+0xf5)[0x7fba88aad555]
[n6:31898] [25] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI[0x2c09e9]
[n6:31898] *** End of error message ***
HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = oakCvIxQ] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n AGC\n AGC\n AGC\n CGC\n AGC\n GGC\n AGC\n CGC\n AGC\n TTT\n GGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":6,"AAC":2,"AAG":2,"AAT":1},"is_constant":0,"sites":{"0":365}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_feHYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = CPMQOhCr] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead"});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n AAA\n GGC\n GGC\n AGC\n GGC\n GGC\n GGC\n AGC\n CCG\n AGC\n GGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":3,"AAG":1,"AAT":6},"is_constant":0,"sites":{"0":367}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","",HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = EmzjXHEj] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n CCG\n AGC\n AGC\n TAT\n AGC\n AGC\n AGC\n TAT\n CCG\n GCG\n AGC;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":6,"AAC":2,"AAG":1,"AAT":2},"is_constant":0,"sites":{"0":398}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2HYPHYMPI terminated.
Error:
HyPhy killed by signal 15


HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = xJPJVREb] Optimize(results, ^lf_bsrel, {"OPTIMIZATION_METHOD":"nedler-mead","OPTIMIZATION_START_GRID":initial_guess_grid});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n AGC\n CCG\n CCG\n ATT\n CCG\n AGC\n CCG\n ATT\n GAA\n AAA\n CCG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    ",0,{"characters":{"AAA":1,"AAC":2,"AAG":2,"AAT":5,"ACA":1},"is_constant":0,"sites":{"0":399}},{"meme.background_fel":{"EFV":{{0.004137266314337496}{0.0169687239531907}{0.02457274011441209}{0.006648272468787841}{0.004988223927693681}{0.0204588702816654}{0.02962688908445011}{0.008015696667074496}{0.005060510162627315}{0.02075534748980489}{0.03005622351204496}{0.008131855151703872}{0.004759321755479793}{0.01952004317277885}{0.02826735523719837}{0.007647868276549672}{0.0062599941084843}{0.02567495150296602}{0.03718039803540363}{0.01005933467274867}{0.007547556774614626}{0.03095580455762328}{0.04482770434154999}{0.0121283500018825}{0.007656931267438767}{0.03140439680072384}{0.04547731951812187}{0.01230410649764166}{0.007201210627035859}{0.0295352887570937}{0.0427706277050793}{0.01157179807056517}{0.005524847150238006}{0.02265979491121379}{0.03281409096730777}{0.00887800939376319}{0.006661203958798224}{0.02732048714897582}{0.03956333029889872}{0.01070404840384327}{0.006757733978558018}{0.02771639863594575}{0.04013665744503297}{0.01085916480777323}{0.006355531222804263}{0.02606679065399236}{0.03774782795243117}{0.0102128555531135}{0.006417553641077075}{0.002514369690180463}{0.00188654106920391}{0.007737523330016649}{0.01120485844676306}{0.003031528090942903}{0.007849650699867237}{0.01136723227797463}{0.003075459108268167}{0.001799970507222113}{0.007382459899932157}{0.01069068416850466}{0.002892415778584245}},"Equilibrium frequency estimator":"Corrected 3x4 frequency estimator","ID":"meme.background_fel","Q":{{"","meme.background_fel.theta_AC*beta*0.3242823595610269","meme.background_fel.theta_AG*alpha*0.4695996096797308","meme.background_fel.theta_AT*beta*0.1270524223937151","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","","","","","","","","","","","","","",""}{"meme.background_fel.theta_AC*beta*0.07906560836552723","","meme.background_fel.theta_CG*beta*0.4695996096797308","meme.background_fel.theta_CT*alpha*0.1270524223937151","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.background_fel.theta_AT*beta*0.2512135563201768","","","","meme.background_fel.theta_AC*beta*0.3579836157936329","","","","","","","","","","","","","","","","meme.background_fel.theta_AG*beta*0.315943549670245","","","","","","","","","","","","","","","meme.background_fel.theta_AT*beta*0.08947939226747782","","","","","","","","","","","",""}{"meme.background_fel.theta_AG*alpha*0.07906560836552723","meme.background_fel.theta_CG*beta*0.3242823595610269","","meme.background_fel.theta_GT*beta*0.1270524223937151","","","meme.background_fel.theta_AC*beta*0.2632958091464448","","","","meme.background_fel.theta_AG*beta*0.2671113280551561","","","","meme.backg[n6:31904] *** Process received signal ***
[n6:31904] Signal: Segmentation fault (11)
[n6:31904] Signal code: Address not mapped (1)
[n6:31904] Failing at address: 0x2a
[n6:31904] [ 0] /lib64/libpthread.so.0(+0xf630)[0x7fee401d0630]
[n6:31904] [ 1] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global23ConstructAnErrorMessageERK7_String+0x257)[0x3439c7]
[n6:31904] [ 2] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global22HandleApplicationErrorERK7_Stringbb+0x2a7)[0x341a77]
[n6:31904] [ 3] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction17_TerminateAndDumpERK7_Stringb+0xdb)[0x35f79b]
[n6:31904] [ 4] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z21hyphy_sigterm_handleri+0x7c)[0x4f4b1c]
[n6:31904] [ 5] /lib64/libc.so.6(+0x36400)[0x7fee3f609400]
[n6:31904] [ 6] /lib64/libc.so.6(+0x14d1c1)[0x7fee3f7201c1]
[n6:31904] [ 7] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN7_Matrix7MultObjEP11_MathObjectS1_+0x131)[0x3858a1]
[n6:31904] [ 8] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x80d)[0x3c028d]
[n6:31904] [ 9] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x286)[0x32fcd6]
[n6:31904] [10] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9_CalcNode15RecomputeMatrixEllP7_MatrixP5_ListP11_SimpleListS3_b+0x1d4)[0x307a34]
[n6:31904] [11] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_TheTree20ExponentiateMatricesER5_Listll+0x403)[0x40b633]
[n6:31904] [12] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction12ComputeBlockElPdllP11_SimpleList+0x90d)[0x35eb9d]
[n6:31904] [13] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction7ComputeEv+0x7ae)[0x3483ee]
[n6:31904] [14] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction13SimplexMethodERdmm+0x1079)[0x36a769]
[n6:31904] [15] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction8OptimizeEPK16_AssociativeList+0x1d70)[0x34a7d0]
[n6:31904] [16] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand30HandleOptimizeCovarianceMatrixER14_ExecutionListb+0x167)[0x2f18a7]
[n6:31904] [17] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31904] [18] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x9f5)[0x3c0475]
[n6:31904] [19] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x18e)[0x32fbde]
[n6:31904] [20] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand7ExecuteER14_ExecutionList+0x4ef)[0x2d3bcf]
[n6:31904] [21] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31904] [22] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z13mpiNormalLoopiiR7_String+0x389)[0x4ebfb9]
[n6:31904] [23] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(main+0xb3b)[0x4f6e8b]
[n6:31904] [24] /lib64/libc.so.6(__libc_start_main+0xf5)[0x7fee3f5f5555]
[n6:31904] [25] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI[0x2c09e9]
[n6:31904] *** End of error message ***
[n6:31905] *** Process received signal ***
[n6:31905] Signal: Segmentation fault (11)
[n6:31905] Signal code: Address not mapped (1)
[n6:31905] Failing at address: 0x2c
[n6:31905] [ 0] /lib64/libpthread.so.0(+0xf630)[0x7f66567be630]
[n6:31905] [ 1] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global23ConstructAnErrorMessageERK7_String+0x257)[0x3439c7]
[n6:31905] [ 2] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9hy_global22HandleApplicationErrorERK7_Stringbb+0x2a7)[0x341a77]
[n6:31905] [ 3] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction17_TerminateAndDumpERK7_Stringb+0xdb)[0x35f79b]
[n6:31905] [ 4] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z21hyphy_sigterm_handleri+0x7c)[0x4f4b1c]
[n6:31905] [ 5] /lib64/libc.so.6(+0x36400)[0x7f6655bf7400]
[n6:31905] [ 6] /lib64/libc.so.6(+0x14cf96)[0x7f6655d0df96]
[n6:31905] [ 7] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN7_Matrix7MultObjEP11_MathObjectS1_+0xc6)[0x385836]
[n6:31905] [ 8] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x80d)[0x3c028d]
[n6:31905] [ 9] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x286)[0x32fcd6]
[n6:31905] [10] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN9_CalcNode15RecomputeMatrixEllP7_MatrixP5_ListP11_SimpleListS3_b+0x1d4)[0x307a34]
[n6:31905] [11] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_TheTree20ExponentiateMatricesER5_Listll+0x403)[0x40b633]
[n6:31905] [12] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction12ComputeBlockElPdllP11_SimpleList+0x90d)[0x35eb9d]
[n6:31905] [13] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction7ComputeEv+0x7ae)[0x3483ee]
[n6:31905] [14] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction13SimplexMethodERdmm+0x13c1)[0x36aab1]
[n6:31905] [15] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN19_LikelihoodFunction8OptimizeEPK16_AssociativeList+0x1d70)[0x34a7d0]
[n6:31905] [16] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand30HandleOptimizeCovarianceMatrixER14_ExecutionListb+0x167)[0x2f18a7]
[n6:31905] [17] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31905] [18] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN10_Operation7ExecuteER6_StackPK18_VariableContainerP7_Stringb+0x9f5)[0x3c0475]
[n6:31905] [19] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN8_Formula7ComputeElPK18_VariableContainerP5_ListP7_Stringlbb+0x18e)[0x32fbde]
[n6:31905] [20] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN18_ElementaryCommand7ExecuteER14_ExecutionList+0x4ef)[0x2d3bcf]
[n6:31905] [21] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_ZN14_ExecutionList7ExecuteEPS_b+0x394)[0x2d33d4]
[n6:31905] [22] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(_Z13mpiNormalLoopiiR7_String+0x389)[0x4ebfb9]
[n6:31905] [23] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI(main+0xb3b)[0x4f6e8b]
[n6:31905] [24] /lib64/libc.so.6(__libc_start_main+0xf5)[0x7f6655be3555]
[n6:31905] [25] /home/datamonkey/datamonkey-js-server/production/app/meme/../../.hyphy/HYPHYMPI[0x2c09e9]
[n6:31905] *** End of error message ***
HYPHYMPI terminated.
Error:
Internal error 
HyPhy killed by signal 15

Function call stack
1 :  [namespace = aQzastvU] Optimize(results, ^lf_fel, {"OPTIMIZATION_METHOD":"nedler-mead",OPTIMIZATION_PRECISION:1e-4});
-------
2 :  return meme.handle_a_site("meme.site_likelihood","meme.site_likelihood_bsrel","\n        lfunction __make_filter (name) {\n            DataSet hidden = ReadFromString (\"#NEXUS\n\nBEGIN TAXA;\n\tDIMENSIONS NTAX = 11;\n\tTAXLABELS\n\t\t'HOMOSAPIENS' 'PANTROGLODYTES' 'PANPANISCUS' 'PONGOABELII' 'MACACAFASCICULARIS' 'NOMASCUSLEUCOGENYS' 'CHLOROCEBUSSABAEUS' 'CERCOCEBUSATYS' 'GORILLAGORILLAGORILLA' 'RHINOPITHECUSROXELLANA' 'AOTUSNANCYMAAE' ;\nEND;\n\nBEGIN CHARACTERS;\n\tDIMENSIONS NCHAR = 3;\n\tFORMAT\n\t\tDATATYPE = DNA\n\t\tGAP=-\n\t\tMISSING=?\n\t\tNOLABELS\n\t;\n\nMATRIX\n GAT\n CTG\n CTG\n CGC\n CTG\n CCG\n CTG\n CGC\n CAG\n CCG\n CTG;\nEND;\");\n            DataSetFilter ^name = CreateFilter (hidden, 3,,,\"TAA,TAG,TGA\");\n        };\n    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frequency estimator":"Corrected 3x4 frequency 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frequency estimator":"Corrected 3x4 frequency 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frequency estimator":"Corrected 3x4 frequency 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frequency estimator":"Corrected 3x4 frequency 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frequency estimator":"Corrected 3x4 frequency 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5 more processes have sent help message help-mpi-api.txt / mpi-abort
[n6:31823] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages