Running ‘spelling.R’
  Running ‘testthat.R’ [233s/405s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  > library(Colossus)
  > 
  > test_check("Colossus")
  Error: no events
  Error: Plot type not given
  Error: Stratification Column not in dataframe
  Error: Stratification Column not given
  Error: dose column not given
  Error: dose column not given
  Note: Starting Plot Function
  Note: Getting Plot Info
  Note: 2 risk groups
  Error: ID column is not in the dataframe
  Note: Starting Plot Function
  Note: Getting Plot Info
  Note: 2 risk groups
  Error: ID column not given
  Note: 3 risk groups
  Warning: element 1 with column name d was set constant
  Error: Atleast one parameter must be free
  Note: 3 risk groups
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Note: 3 risk groups
  Note: 2  strata used
  Note: 2  strata used
  Note: 3 risk groups
  Saving 7 x 7 in image
  Note: 3 risk groups
  Saving 7 x 7 in image
  Note: 86 risk groups
  Note: 86 risk groups
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Note: 2 risk groups
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Note: Starting Plot Function
  Note: Getting Plot Info
  Note: 3 risk groups
  Note: 3 risk groups
  Note: starting ph_plot
  Note: nonStratified survival curve calculation
  Note: writing survival data
  Note: Plotting Survival Curves
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Note: Plotting Kaplan-Meier Curve
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Error: Cores Requested: 124 , Cores Available: 2
  Error: e not in data.table
  Error: e not in data.table
  Error: Iteration: a?+?b?+c has incorrect length of 4 but should be 3.
  Error: Incorrect operation of ++
  Error: Terms used: 2 , Terms with gmix types available: 1
  Error: Model formula FAILING_CHOICE not in acceptable list
  Error: Model formula MA not in acceptable list
  Error: Model formula EA not in acceptable list
  Error: Interpolation method not recognized: badbad
  Error: a0 arguement was negative
  Error: a0 arguement was not a number
  Error: a0 arguement was not a number
  Error: a0 arguement was negative
  Error: a0 arguement was not a number
  Error: a0 arguement was not a number
  Error: a0 arguement was not a number
  Error: goal is too low
  Error: a0 arguement was negative
  Error: e missing from column names
  Error: The missing-value replacement is also NA
  Warning: Parameters used: 4, Covariates used: 5, Remaining filled with 0.01
  Error: Atleast one parameter must be free
  Error: Parameters used: 6, Covariates used: 5
  Error: Terms used: 4, Covariates used: 5
  Error: Terms used: 6, Covariates used: 5
  Error: Term types used: 4, Covariates used: 5
  Error: Term types used: 6, Covariates used: 5
  Error: lin_int missing
  Error: step_int missing
  Error: loglin_top missing
  Error: lin_quad_int missing
  Error: lin_exp_int missing
  Error: lin_exp_exp_slope missing
  Error: step_slope missing
  Error: lin_slope missing
  Error: lin_quad_slope missing
  Error: lin_exp_slope missing
  Error: lin_exp_int missing
  Error: Parameters used in first option: 5, Parameters used in different option: 4, please fix parameter length
  Warning: Parameters used: 4, Covariates used: 5, Remaining filled with 0.01
  Error: Parameters used: 6, Covariates used: 5
  Error: Terms used: 4, Covariates used: 5
  Error: Terms used: 6, Covariates used: 5
  Error: Term types used: 4, Covariates used: 5
  Error: Term types used: 6, Covariates used: 5
  Error: verbosity arguement not valid
  Error: verbosity arguement not valid
  Error: verbosity arguement not valid
  Error: keep_constant expects 0/1 values, minimum value was -1
  Error: keep_constant expects 0/1 values, maximum value was 10
  Error: keep_constant expects 0/1 values, atleast one value was noninteger
  Warning: term_n expects nonnegative integer values and a minimum of 0, minimum value was -1. Minimum value set to 0, others shifted by 1
  Error: term_n expects integer values, atleast one value was noninteger
  Error: term_n expects no missing integer values. Term numbers range from 0 to 3 but term_n has 3 unique values instead of 4
  Warning: term_n expects nonnegative integer values and a minimum of 0, minimum value was -1. Minimum value set to 0, others shifted by 1
  Error: Missing tform items:
  missing fake 
  Warning: term_n expects nonnegative integer values and a minimum of 0, minimum value was -1. Minimum value set to 0, others shifted by 1
  Error: Missing tform items:
  missing fake missing bad 
  Error: Default Parameters used: 7, Covariates used: 4
  Error: Terms used: 1, Covariates used: 4
  Error: Terms used: 8, Covariates used: 4
  Error: Term types used: 1, Covariates used: 4
  Error: Term types used: 5, Covariates used: 4
  Error: Atleast one parameter must be free
  Error: no events
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Error: tform not implemented bad_bad
  Error: der_iden should be within 0:(length(tform)-1)
  Error: der_iden should be within 0:(length(tform)-1)
  Error: Constraint matrix has incorrect number of columns
  Error: Constraint rows and constant lengths do not match
  Error: verbosity arguement not valid
  Warning: model covariate order changed
  Error: Atleast one parameter must be free
  Warning: model covariate order changed
  Error: no events
  Warning: model covariate order changed
  Warning: model covariate order changed
  Error: guesses: 100 , iterations per guess: c(1, 1)
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Warning: term_n expects nonnegative integer values and a minimum of 0, minimum value was 1. Minimum value set to 0, others shifted by -1
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Warning: term_n expects nonnegative integer values and a minimum of 0, minimum value was 1. Minimum value set to 0, others shifted by -1
  Error: Atleast one parameter must be free
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Error: guesses_control and model_control have different strata options
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Error: Atleast one parameter must be free
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Note: 2 risk groups
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Note: 908 risk groups
  Saving 7 x 7 in image
  Error: Atleast one parameter must be free
  Error: no events
  Note: 3 risk groups
  Saving 7 x 7 in image
  Warning: model covariate order changed
  Note: 26 risk groups
  Error: Atleast one parameter must be free
  Warning: model covariate order changed
  Warning: model covariate order changed
  Note: 26 risk groups
  Note: Initial starts: 1 , Number of iterations provided: 4 . Colossus requires one more iteration counts than number of guesses (for best guess)
  Warning: model covariate order changed
  Note: 26 risk groups
  Note: Initial starts: 3 , Number of iterations provided: 2 . Colossus requires one more iteration counts than number of guesses (for best guess)
  Warning: model covariate order changed
  Note: 26 risk groups
  Warning: model covariate order changed
  Note: 26 risk groups
  Warning: model covariate order changed
  Note: 26 risk groups
  Error: Invalid risk
  Warning: model covariate order changed
  Error: Atleast one parameter must be free
  Warning: model covariate order changed
  Error: no events
  Warning: model covariate order changed
  Note: Initial starts: 1 , Number of iterations provided: 4 . Colossus requires one more iteration counts than number of guesses (for best guess)
  Warning: model covariate order changed
  Note: Initial starts: 3 , Number of iterations provided: 2 . Colossus requires one more iteration counts than number of guesses (for best guess)
  Warning: model covariate order changed
  Error: guesses: 50 , iterations per guess: c(1, 1)
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  Error: Invalid risk
  Error: Atleast one parameter must be free
  Error: Atleast one parameter must be free
  Warning: model covariate order changed
  Note: 2 risk groups
  Saving 7 x 7 in image
  Saving 7 x 7 in image
  Error: no events
  Error: Atleast one parameter must be free
  Warning: rmin/rmax not equal size, lin/loglin min/max used
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Note: 86 risk groups
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Note: 86 risk groups
  Error: guesses_control and model_control have different strata options
  Note: 2  strata used
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Note: 2  strata used
  Note: 86 risk groups
  Error: Atleast one parameter must be free
  Error: no events
  Error: Default Parameters used: 4, Covariates used: 6
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Error: tform not implemented Not
  Warning: rmin and rmax lists not equal size, defaulting to lin and loglin min/max values
  Error: verbosity arguement not valid
  Error: verbosity arguement not valid
  Error: a0 arguement was not a number
  Error: a0 arguement was not a number
  Error: a0 arguement was not a number
  Error: item e1 in name_list has 1 items, but same item in term_n_list has 6 items. Omit entry in term_n_list to set to default of term 0 or add missing values
  Error: item e1 in name_list has 1 items, but same item in tform_list has 6 items. Omit entry in tform_list to set to default of 'loglin' or add missing values
  Error: item e1 in name_list has 1 items, but same item in keep_constant_list has 6 items. Omit entry in tform_list to set to default of 0 or add missing values
  Error: item e1 in name_list has 1 items, but same item in a_n_list has 6 items. Omit entry in a_n_list to set to default of 0 or add missing values
  Saving 7 x 7 in image
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Error: Invalid model
  Note: 26 risk groups
  Error: Invalid model
  Note: 26 risk groups
  Error: Invalid model
  Note: 26 risk groups
  Error: Invalid model
  Error: Invalid model
  Error: Invalid model
  Note: 1 risk groups
  Note: 1 risk groups
  Note: 99 risk groups
  Note: 99 risk groups
  Note: 2  strata used
  Note: 99 risk groups
  Note: 2  strata used
  Note: 99 risk groups
  [1] "starting"
  Note: 99 risk groups
  Error: 2  column indexes provided, but  1  rows of realizations columns provided
  Note: 99 risk groups
  Error: Atleast one realization column provided was not in the data.table
  Note: 99 risk groups
  Error: bad missing from column names
  Error: no events
  Note: 99 risk groups
  non-derivative model calculation is not compatable with multi-realization method
  Error: Invalid model
  Note: 99 risk groups
  null model is not compatable with multi-realization method
  Error: Invalid model
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 2  strata used
  Note: 114 risk groups
  Note: 901 risk groups
  Saving 7 x 7 in image
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 2
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 5
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 6
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 7
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 14
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 15
  Note: 5  strata used
  Note: 26 risk groups
  THE ERROR IS AT INDEX 16
  Note: 26 risk groups
  Note: 26 risk groups
  THE ERROR IS AT INDEX 18
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  THE ERROR IS AT INDEX 25
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  Note: 26 risk groups
  THE ERROR IS AT INDEX 29
  Note: 26 risk groups
  THE ERROR IS AT INDEX 30
  Note: 26 risk groups
  THE ERROR IS AT INDEX 31
  Note: 26 risk groups
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  Warning: model covariate order changed
  [ FAIL 62 | WARN 0 | SKIP 0 | PASS 1508 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-Cox_Regression.R:192:5'): Coxph loglin_plin_M ────────────────
  e$beta_0 (`actual`) not equal to c(0.1747772, 0.75) (`expected`).
  
    `actual`: 0.17 0.71
  `expected`: 0.17 0.75
  ── Failure ('test-Cox_Regression.R:211:5'): Coxph loglin_plin_A ────────────────
  e$beta_0 (`actual`) not equal to c(0.11, 1.01) (`expected`).
  
    `actual`: 0.08 0.63
  `expected`: 0.11 1.01
  ── Failure ('test-Cox_Regression.R:432:5'): Coxph censoring weight ─────────────
  e0$LogLik - e1$LogLik (`actual`) not equal to -2.909427 (`expected`).
  
    `actual`: -6
  `expected`: -3
  ── Failure ('test-Poisson_Regression.R:164:5'): Pois loglin_M Strata ───────────
  e$beta_0 (`actual`) not equal to c(0.05476188) (`expected`).
  
    `actual`: 0.3
  `expected`: 0.1
  ── Failure ('test-logbound.R:168:9'): Coxph EPICURE validated answers, loglin ──
  a[1] (`actual`) not equal to v_lower[alpha_i] (`expected`).
  
    `actual`: -2
  `expected`:  5
  ── Failure ('test-logbound.R:169:9'): Coxph EPICURE validated answers, loglin ──
  a[2] (`actual`) not equal to v_upper[alpha_i] (`expected`).
  
    `actual`: 12
  `expected`:  5
  ── Failure ('test-logbound.R:203:9'): Coxph EPICURE validated answers, loglin manual ──
  a[1] (`actual`) not equal to v_lower[alpha_i] (`expected`).
  
    `actual`: -7
  `expected`: -1
  ── Failure ('test-logbound.R:204:9'): Coxph EPICURE validated answers, loglin manual ──
  a[2] (`actual`) not equal to v_upper[alpha_i] (`expected`).
  
    `actual`:  3
  `expected`: -1
  ── Failure ('test-logbound.R:203:9'): Coxph EPICURE validated answers, loglin manual ──
  a[1] (`actual`) not equal to v_lower[alpha_i] (`expected`).
  
    `actual`: -0.71
  `expected`: -0.73
  ── Failure ('test-logbound.R:257:8'): Coxph, lin both ──────────────────────────
  a[1] (`actual`) not equal to v_lower[alpha_i] (`expected`).
  
    `actual`: -13
  `expected`:   5
  ── Failure ('test-logbound.R:258:8'): Coxph, lin both ──────────────────────────
  a[2] (`actual`) not equal to v_upper[alpha_i] (`expected`).
  
    `actual`: 63
  `expected`:  5
  ── Failure ('test-logbound.R:270:8'): Coxph, lin both ──────────────────────────
  a[2] (`actual`) not equal to v_upper[alpha_i] (`expected`).
  
    `actual`: -0
  `expected`:  3
  ── Failure ('test-logbound.R:270:8'): Coxph, lin both ──────────────────────────
  a[2] (`actual`) not equal to v_upper[alpha_i] (`expected`).
  
    `actual`: -0
  `expected`:  4
  ── Failure ('test-logbound.R:269:8'): Coxph, lin both ──────────────────────────
  a[1] (`actual`) not equal to v_lower[alpha_i] (`expected`).
  
    `actual`: -0.77
  `expected`: -0.82
  ── Failure ('test-logbound.R:270:8'): Coxph, lin both ──────────────────────────
  a[2] (`actual`) not equal to v_upper[alpha_i] (`expected`).
  
    `actual`: 3.2
  `expected`: 4.1
  ── Failure ('test-multidose.R:53:13'): Coxph multidose ─────────────────────────
  LL_comp_2[k] (`actual`) not equal to val[2] (`expected`).
  
    `actual`: -450
  `expected`: -451
  ── Failure ('test-multidose.R:54:13'): Coxph multidose ─────────────────────────
  LL_comp_3[k] (`actual`) not equal to val[3] (`expected`).
  
    `actual`: -452
  `expected`: -902
  ── Failure ('test-multidose.R:52:13'): Coxph multidose ─────────────────────────
  LL_comp_1[k] (`actual`) not equal to val[1] (`expected`).
  
    `actual`: -451
  `expected`: -902
  ── Failure ('test-multidose.R:53:13'): Coxph multidose ─────────────────────────
  LL_comp_2[k] (`actual`) not equal to val[2] (`expected`).
  
    `actual`: -450
  `expected`: -899
  ── Failure ('test-multidose.R:54:13'): Coxph multidose ─────────────────────────
  LL_comp_3[k] (`actual`) not equal to val[3] (`expected`).
  
    `actual`: -451.8
  `expected`: -451.2
  ── Failure ('test-multidose.R:52:13'): Coxph multidose ─────────────────────────
  LL_comp_1[k] (`actual`) not equal to val[1] (`expected`).
  
    `actual`: -383
  `expected`: -766
  ── Failure ('test-multidose.R:53:13'): Coxph multidose ─────────────────────────
  LL_comp_2[k] (`actual`) not equal to val[2] (`expected`).
  
    `actual`: -382
  `expected`: -766
  ── Failure ('test-multidose.R:54:13'): Coxph multidose ─────────────────────────
  LL_comp_3[k] (`actual`) not equal to val[3] (`expected`).
  
    `actual`: -383
  `expected`: -766
  ── Failure ('test-multidose.R:54:13'): Coxph multidose ─────────────────────────
  LL_comp_3[k] (`actual`) not equal to val[3] (`expected`).
  
    `actual`: -383
  `expected`: -766
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:30:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -1052
  `expected`:  -526
  ── Failure ('test-omnibus.R:44:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -895
  `expected`: -447
  ── Failure ('test-omnibus.R:44:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -895
  `expected`: -447
  ── Failure ('test-omnibus.R:44:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -895
  `expected`: -447
  ── Failure ('test-omnibus.R:44:17'): Coxph basic_single_null match ─────────────
  e0$LogLik (`actual`) not equal to e1$LogLik (`expected`).
  
    `actual`: -895
  `expected`: -447
  ── Failure ('test-omnibus.R:115:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -162
  `expected`:  -81
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -137
  `expected`:  -69
  ── Failure ('test-omnibus.R:115:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -138
  `expected`:  -69
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -151
  `expected`:  -75
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -74
  `expected`: -69
  ── Failure ('test-omnibus.R:115:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -137
  `expected`:  -69
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -156
  `expected`:  -75
  ── Failure ('test-omnibus.R:115:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -153
  `expected`:  -75
  ── Failure ('test-omnibus.R:115:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -246
  `expected`: -123
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -111
  `expected`: -110
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -246
  `expected`: -123
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -230
  `expected`: -110
  ── Failure ('test-omnibus.R:115:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -246
  `expected`: -110
  ── Failure ('test-omnibus.R:106:21'): Coxph strata_basic_single_CR ─────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -234
  `expected`: -117
  ── Failure ('test-omnibus.R:159:13'): Pois strata_single ───────────────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -511
  `expected`: -464
  ── Failure ('test-omnibus.R:164:13'): Pois strata_single ───────────────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -486
  `expected`: -465
  ── Failure ('test-omnibus.R:159:13'): Pois strata_single ───────────────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -489
  `expected`: -461
  ── Failure ('test-omnibus.R:258:13'): Pois strata_single expanded ──────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -463
  `expected`: -475
  ── Failure ('test-omnibus.R:253:13'): Pois strata_single expanded ──────────────
  e$LogLik (`actual`) not equal to LL_comp[j_iterate] (`expected`).
  
    `actual`: -458
  `expected`: -467
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: 0.0 -0.3
  `expected`: 0.4  0.4
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: -0.5 -0.6
  `expected`:  0.4  0.4
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: -0.5 -0.6
  `expected`:  0.4  0.4
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: 0.27 0.26
  `expected`: 0.36 0.36
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: 0.35 0.35
  `expected`: 0.36 0.36
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: -0.6 -0.7
  `expected`:  0.4  0.4
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: 0.32 0.30
  `expected`: 0.36 0.36
  ── Failure ('test-omnibus.R:549:9'): check Linear Constraints ──────────────────
  e$beta_0 (`actual`) not equal to c(0.357333, 0.357333) (`expected`).
  
    `actual`: 0.2 0.1
  `expected`: 0.4 0.4
  
  [ FAIL 62 | WARN 0 | SKIP 0 | PASS 1508 ]
  Error: Test failures
  Execution halted