* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/cramR.Rcheck’
* using R Under development (unstable) (2025-12-20 r89211)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
    GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
* running under: Fedora Linux 40 (Workstation Edition)
* using session charset: UTF-8
* checking for file ‘cramR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cramR’ version ‘0.1.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘cramR’ can be installed ... [21s/21s] OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [23s/23s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking examples with --run-donttest ... [21s/21s] ERROR
Running examples in ‘cramR-Ex.R’ failed
The error most likely occurred in:

> ### Name: cram_bandit_sim
> ### Title: Cram Bandit Simulation
> ### Aliases: cram_bandit_sim
> 
> ### ** Examples
> 
> ## No test: 
> # Number of time steps
> horizon       <- 500L
> 
> # Number of simulations
> simulations   <- 100L
> 
> # Number of arms
> k = 4
> 
> # Number of context features
> d= 3
> 
> # Reward beta parameters of linear model (the outcome generation models,
> # one for each arm, are linear with arm-specific parameters betas)
> list_betas <- cramR::get_betas(simulations, d, k)
> 
> # Define the contextual linear bandit, where sigma is the scale
> # of the noise in the outcome linear model
> bandit        <- cramR::ContextualLinearBandit$new(k = k,
+                                                     d = d,
+                                                     list_betas = list_betas,
+                                                     sigma = 0.3)
> 
> # Define the policy object (choose between Contextual Epsilon Greedy,
> # UCB Disjoint and Thompson Sampling)
> policy <- cramR::BatchContextualEpsilonGreedyPolicy$new(epsilon=0.1,
+                                                          batch_size=5)
> # policy <- cramR::BatchLinUCBDisjointPolicyEpsilon$new(alpha=1.0,epsilon=0.1,batch_size=1)
> # policy <- cramR::BatchContextualLinTSPolicy$new(v = 0.1, batch_size=1)
> 
> 
> sim <- cram_bandit_sim(horizon, simulations,
+                        bandit, policy,
+                        alpha=0.05, do_parallel = FALSE)
Simulation horizon: 500
Number of simulations: 101
Number of batches: 1
Starting main loop.

Attaching package: ‘data.table’

The following object is masked from ‘package:base’:

    %notin%

Finished main loop.
Completed simulation in 0:00:14.786
Computing statistics.
Error in `[.data.table`(res, , `:=`(probas, list(compute_probas(.SD, policy,  : 
  attempt access index 7/7 in VECTOR_ELT
Calls: cram_bandit_sim -> [ -> [.data.table
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [21s/21s]
 [22s/21s] ERROR
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/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(cramR)
  > 
  > # Suppress the creation of __pycache__ directories during Python-related operations
  > Sys.setenv(PYTHONDONTWRITEBYTECODE = 1)
  > 
  > test_check("cramR")
  
  Attaching package: 'data.table'
  
  The following object is masked from 'package:base':
  
      %notin%
  
  Simulation horizon: 100
  Number of simulations: 11
  Number of batches: 1
  Starting main loop.
  Finished main loop.
  Completed simulation in 0:00:01.026
  Computing statistics.
  Saving _problems/test_cram_bandit_sim-15.R
  Simulation horizon: 100
  Number of simulations: 11
  Number of batches: 1
  Starting main loop.
  Finished main loop.
  Completed simulation in 0:00:00.623
  Computing statistics.
  Saving _problems/test_cram_bandit_sim-32.R
  Simulation horizon: 100
  Number of simulations: 11
  Number of batches: 1
  Starting main loop.
  Finished main loop.
  Completed simulation in 0:00:00.657
  Computing statistics.
  Saving _problems/test_cram_bandit_sim-49.R
  Simulation horizon: 100
  Number of simulations: 11
  Number of batches: 1
  Starting main loop.
  Finished main loop.
  Completed simulation in 0:00:00.708
  Computing statistics.
  Saving _problems/test_cram_bandit_sim-67.R
  Simulation horizon: 20
  Number of simulations: 6
  Number of batches: 1
  Starting main loop.
  Finished main loop.
  Completed simulation in 0:00:00.318
  Computing statistics.
  Saving _problems/test_cram_bandit_sim-85.R
  
  Attaching package: 'waldo'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  Loading required package: ggplot2
  Loading required package: lattice
  Loading required package: Matrix
  Loaded glmnet 4.1-10
  Saving _problems/test_cram_simulation-57.R
  [ FAIL 6 | WARN 0 | SKIP 3 | PASS 127 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • Skipping this test temporarily (3): 'test_cram_learning.R:42:3',
    'test_cram_policy.R:41:3', 'test_cram_policy.R:156:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_cram_bandit_sim.R:15:3'): cram_bandit_sim runs and returns expected structure with  batch epsilon greedy ──
  Error in ``[.data.table`(res, , `:=`(probas, list(compute_probas(.SD, policy, policy_name, batch_size = batch_size))), by = .(agent, sim))`: attempt access index 7/7 in VECTOR_ELT
  Backtrace:
      ▆
   1. └─cramR::cram_bandit_sim(horizon, simulations, bandit, policy) at test_cram_bandit_sim.R:15:3
   2.   ├─...[]
   3.   └─data.table:::`[.data.table`(...)
  ── Error ('test_cram_bandit_sim.R:32:3'): cram_bandit_sim runs and returns expected structure with  batch = 1 epsilon greedy ──
  Error in ``[.data.table`(res, , `:=`(probas, list(compute_probas(.SD, policy, policy_name, batch_size = batch_size))), by = .(agent, sim))`: attempt access index 7/7 in VECTOR_ELT
  Backtrace:
      ▆
   1. └─cramR::cram_bandit_sim(horizon, simulations, bandit, policy) at test_cram_bandit_sim.R:32:3
   2.   ├─...[]
   3.   └─data.table:::`[.data.table`(...)
  ── Error ('test_cram_bandit_sim.R:49:3'): cram_bandit_sim runs and returns expected structure with ucb ──
  Error in ``[.data.table`(res, , `:=`(probas, list(compute_probas(.SD, policy, policy_name, batch_size = batch_size))), by = .(agent, sim))`: attempt access index 7/7 in VECTOR_ELT
  Backtrace:
      ▆
   1. └─cramR::cram_bandit_sim(horizon, simulations, bandit, policy) at test_cram_bandit_sim.R:49:3
   2.   ├─...[]
   3.   └─data.table:::`[.data.table`(...)
  ── Error ('test_cram_bandit_sim.R:67:3'): cram_bandit_sim runs and returns expected structure with thompson ──
  Error in ``[.data.table`(res, , `:=`(probas, list(compute_probas(.SD, policy, policy_name, batch_size = batch_size))), by = .(agent, sim))`: attempt access index 7/7 in VECTOR_ELT
  Backtrace:
      ▆
   1. └─cramR::cram_bandit_sim(horizon, simulations, bandit, policy) at test_cram_bandit_sim.R:67:3
   2.   ├─...[]
   3.   └─data.table:::`[.data.table`(...)
  ── Error ('test_cram_bandit_sim.R:85:3'): cram_bandit_sim returns finite numeric outputs ──
  Error in ``[.data.table`(res, , `:=`(probas, list(compute_probas(.SD, policy, policy_name, batch_size = batch_size))), by = .(agent, sim))`: attempt access index 7/7 in VECTOR_ELT
  Backtrace:
      ▆
   1. └─cramR::cram_bandit_sim(horizon, simulations, bandit, policy) at test_cram_bandit_sim.R:85:3
   2.   ├─...[]
   3.   └─data.table:::`[.data.table`(...)
  ── Error ('test_cram_simulation.R:49:3'): cram_simulation runs correctly and returns expected metrics ──
  Error in ``[.data.table`(big_X, , `:=`(D, dgp_D(.SD)), by = sim_id)`: attempt access index 4/4 in VECTOR_ELT
  Backtrace:
      ▆
   1. └─cramR::cram_simulation(...) at test_cram_simulation.R:49:3
   2.   ├─big_X[, `:=`(D, dgp_D(.SD)), by = sim_id]
   3.   └─data.table:::`[.data.table`(big_X, , `:=`(D, dgp_D(.SD)), by = sim_id)
  
  [ FAIL 6 | WARN 0 | SKIP 3 | PASS 127 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [88s/82s] ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘cram_bandit.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cram_bandit.Rmd’

--- re-building ‘cram_bandit_helpers.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cram_bandit_helpers.Rmd’

--- re-building ‘cram_bandit_simulation.Rmd’ using rmarkdown

Quitting from cram_bandit_simulation.Rmd:76-106 [contextual-example]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 7/7 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─cramR::cram_bandit_sim(...)
 2.   ├─...[]
 3.   └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'cram_bandit_simulation.Rmd' failed with diagnostics:
attempt access index 7/7 in VECTOR_ELT
--- failed re-building ‘cram_bandit_simulation.Rmd’

--- re-building ‘cram_ml.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cram_ml.Rmd’

--- re-building ‘cram_policy_part_1.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cram_policy_part_1.Rmd’

--- re-building ‘cram_policy_part_2.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cram_policy_part_2.Rmd’

--- re-building ‘cram_policy_simulation.Rmd’ using rmarkdown

Quitting from cram_policy_simulation.Rmd:50-100 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 4/4 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─cramR::cram_simulation(...)
 2.   ├─big_X[, `:=`(D, dgp_D(.SD)), by = sim_id]
 3.   └─data.table:::`[.data.table`(big_X, , `:=`(D, dgp_D(.SD)), by = sim_id)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'cram_policy_simulation.Rmd' failed with diagnostics:
attempt access index 4/4 in VECTOR_ELT
--- failed re-building ‘cram_policy_simulation.Rmd’

--- re-building ‘quickstart.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘quickstart.Rmd’

SUMMARY: processing the following files failed:
  ‘cram_bandit_simulation.Rmd’ ‘cram_policy_simulation.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* checking for new files in some other directories ... OK
* DONE

Status: 3 ERRORs
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/cramR.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 4:21.89, 234.36 + 32.55