CRAN Package Check Results for Package flocker

Last updated on 2025-03-10 08:52:24 CET.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	1.0-0	12.07	240.60	252.67	ERROR
r-devel-linux-x86_64-debian-gcc	1.0-0	11.89	851.18	863.07	OK
r-devel-linux-x86_64-fedora-clang	1.0-0			390.80	ERROR
r-devel-linux-x86_64-fedora-gcc	1.0-0			2085.32	OK
r-devel-macos-arm64	1.0-0			404.00	OK
r-devel-macos-x86_64	1.0-0			1424.00	OK
r-devel-windows-x86_64	1.0-0	15.00	900.00	915.00	OK
r-patched-linux-x86_64	1.0-0	13.35	1180.80	1194.15	OK
r-release-linux-x86_64	1.0-0	11.74	1183.13	1194.87	OK
r-release-macos-arm64	1.0-0			376.00	OK
r-release-macos-x86_64	1.0-0			1064.00	OK
r-release-windows-x86_64	1.0-0	14.00	898.00	912.00	OK
r-oldrel-macos-arm64	1.0-0				OK
r-oldrel-macos-x86_64	1.0-0			646.00	OK
r-oldrel-windows-x86_64	1.0-0	19.00	1194.00	1213.00	OK

Additional issues

M1mac

Check Details

Version: 1.0-0
Check: tests
Result: ERROR Running ‘spelling.R’ [0s/0s] Running ‘testthat.R’ [158s/198s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(flocker) > > test_check("flocker") Formatting data for a single-season occupancy model. For details, see make_flocker_data_static. All warnings and error messages should be interpreted in the context of make_flocker_data_static Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000259 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 2.59 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.002 seconds (Warm-up) Chain 1: 0.003 seconds (Sampling) Chain 1: 0.005 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000144 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 1.44 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.002 seconds (Warm-up) Chain 2: 0.005 seconds (Sampling) Chain 2: 0.007 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.000126 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 1.26 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.008 seconds (Warm-up) Chain 3: 0.006 seconds (Sampling) Chain 3: 0.014 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000138 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 1.38 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.002 seconds (Warm-up) Chain 4: 0.002 seconds (Sampling) Chain 4: 0.004 seconds (Total) Chain 4: Formatting data for a single-season multispecies occupancy model with data augmentation for never-observed species. For details, see make_flocker_data_augmented. 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Compiling Stan program... 0,248,Js_of_ocaml__Js.Error,18,TypeError: not a function at c$ (<input>:5378:79) at dIb (<input>:25505:6) Error in `FUN()`: ! In path: "/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/flocker.Rcheck/tests/testthat/setup.R" Caused by error in `model_cppcode$errors`: ! $ operator is invalid for atomic vectors Backtrace: ▆ 1. ├─testthat::test_check("flocker") 2. │ └─testthat::test_dir(...) 3. │ └─testthat:::test_files(...) 4. │ └─testthat:::test_files_serial(...) 5. │ └─testthat:::test_files_setup_state(...) 6. │ └─testthat::source_test_setup(".", env) 7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE) 8. │ └─base::lapply(...) 9. │ └─testthat (local) FUN(X[[i]], ...) 10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap) 11. │ ├─base::withCallingHandlers(...) 12. │ └─base::eval(exprs, env) 13. │ └─base::eval(exprs, env) 14. │ ├─base::suppressWarnings(...) at tests/testthat/setup.R:6:1 15. │ │ └─base::withCallingHandlers(...) 16. │ └─flocker::flock(...) at tests/testthat/setup.R:31:3 17. │ └─flocker:::flock_(...) 18. │ └─flocker:::flocker_fit_code_util(...) 19. │ └─brms::brm(...) 20. │ └─brms::do_call(compile_model, compile_args) 21. │ └─brms:::eval2(call, envir = args, enclos = envir) 22. │ └─base::eval(expr, envir, ...) 23. │ └─base::eval(expr, envir, ...) 24. │ └─brms (local) .fun(...) 25. │ └─brms (local) .compile_model(model, ...) 26. │ ├─brms:::eval_silent(...) 27. │ │ └─base::eval(expr, envir) 28. │ │ └─base::eval(expr, envir) 29. │ └─brms::do_call(rstan::stan_model, args) 30. │ └─brms:::eval2(call, envir = args, enclos = envir) 31. │ └─base::eval(expr, envir, ...) 32. │ └─base::eval(expr, envir, ...) 33. │ └─rstan (local) .fun(model_code = .x1) 34. │ └─rstan::stanc(...) 35. └─base::.handleSimpleError(...) 36. └─testthat (local) h(simpleError(msg, call)) 37. └─rlang::abort(...) Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.0-0
Check: tests
Result: ERROR Running ‘spelling.R’ Running ‘testthat.R’ [221s/569s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(flocker) > > test_check("flocker") Formatting data for a single-season occupancy model. For details, see make_flocker_data_static. All warnings and error messages should be interpreted in the context of make_flocker_data_static Compiling Stan program... Start sampling SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000383 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 3.83 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 8 [ 12%] (Warmup) Chain 1: Iteration: 2 / 8 [ 25%] (Warmup) Chain 1: Iteration: 3 / 8 [ 37%] (Warmup) Chain 1: Iteration: 4 / 8 [ 50%] (Warmup) Chain 1: Iteration: 5 / 8 [ 62%] (Sampling) Chain 1: Iteration: 6 / 8 [ 75%] (Sampling) Chain 1: Iteration: 7 / 8 [ 87%] (Sampling) Chain 1: Iteration: 8 / 8 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.007 seconds (Warm-up) Chain 1: 0.01 seconds (Sampling) Chain 1: 0.017 seconds (Total) Chain 1: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000207 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 2.07 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 8 [ 12%] (Warmup) Chain 2: Iteration: 2 / 8 [ 25%] (Warmup) Chain 2: Iteration: 3 / 8 [ 37%] (Warmup) Chain 2: Iteration: 4 / 8 [ 50%] (Warmup) Chain 2: Iteration: 5 / 8 [ 62%] (Sampling) Chain 2: Iteration: 6 / 8 [ 75%] (Sampling) Chain 2: Iteration: 7 / 8 [ 87%] (Sampling) Chain 2: Iteration: 8 / 8 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.011 seconds (Warm-up) Chain 2: 0.015 seconds (Sampling) Chain 2: 0.026 seconds (Total) Chain 2: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 3). Chain 3: Chain 3: Gradient evaluation took 0.002316 seconds Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 23.16 seconds. Chain 3: Adjust your expectations accordingly! Chain 3: Chain 3: Chain 3: WARNING: No variance estimation is Chain 3: performed for num_warmup < 20 Chain 3: Chain 3: Iteration: 1 / 8 [ 12%] (Warmup) Chain 3: Iteration: 2 / 8 [ 25%] (Warmup) Chain 3: Iteration: 3 / 8 [ 37%] (Warmup) Chain 3: Iteration: 4 / 8 [ 50%] (Warmup) Chain 3: Iteration: 5 / 8 [ 62%] (Sampling) Chain 3: Iteration: 6 / 8 [ 75%] (Sampling) Chain 3: Iteration: 7 / 8 [ 87%] (Sampling) Chain 3: Iteration: 8 / 8 [100%] (Sampling) Chain 3: Chain 3: Elapsed Time: 0.044 seconds (Warm-up) Chain 3: 0.038 seconds (Sampling) Chain 3: 0.082 seconds (Total) Chain 3: SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 4). Chain 4: Chain 4: Gradient evaluation took 0.000259 seconds Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 2.59 seconds. Chain 4: Adjust your expectations accordingly! Chain 4: Chain 4: Chain 4: WARNING: No variance estimation is Chain 4: performed for num_warmup < 20 Chain 4: Chain 4: Iteration: 1 / 8 [ 12%] (Warmup) Chain 4: Iteration: 2 / 8 [ 25%] (Warmup) Chain 4: Iteration: 3 / 8 [ 37%] (Warmup) Chain 4: Iteration: 4 / 8 [ 50%] (Warmup) Chain 4: Iteration: 5 / 8 [ 62%] (Sampling) Chain 4: Iteration: 6 / 8 [ 75%] (Sampling) Chain 4: Iteration: 7 / 8 [ 87%] (Sampling) Chain 4: Iteration: 8 / 8 [100%] (Sampling) Chain 4: Chain 4: Elapsed Time: 0.013 seconds (Warm-up) Chain 4: 0.012 seconds (Sampling) Chain 4: 0.025 seconds (Total) Chain 4: Formatting data for a single-season multispecies occupancy model with data augmentation for never-observed species. For details, see make_flocker_data_augmented. 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Compiling Stan program... 0,248,Js_of_ocaml__Js.Error,18,TypeError: not a function at c$ (<input>:5378:79) at dIb (<input>:25505:6) Error in `FUN()`: ! In path: "/data/gannet/ripley/R/packages/tests-clang/flocker.Rcheck/tests/testthat/setup.R" Caused by error in `model_cppcode$errors`: ! $ operator is invalid for atomic vectors Backtrace: ▆ 1. ├─testthat::test_check("flocker") 2. │ └─testthat::test_dir(...) 3. │ └─testthat:::test_files(...) 4. │ └─testthat:::test_files_serial(...) 5. │ └─testthat:::test_files_setup_state(...) 6. │ └─testthat::source_test_setup(".", env) 7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE) 8. │ └─base::lapply(...) 9. │ └─testthat (local) FUN(X[[i]], ...) 10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap) 11. │ ├─base::withCallingHandlers(...) 12. │ └─base::eval(exprs, env) 13. │ └─base::eval(exprs, env) 14. │ ├─base::suppressWarnings(...) at tests/testthat/setup.R:6:1 15. │ │ └─base::withCallingHandlers(...) 16. │ └─flocker::flock(...) at tests/testthat/setup.R:31:3 17. │ └─flocker:::flock_(...) 18. │ └─flocker:::flocker_fit_code_util(...) 19. │ └─brms::brm(...) 20. │ └─brms::do_call(compile_model, compile_args) 21. │ └─brms:::eval2(call, envir = args, enclos = envir) 22. │ └─base::eval(expr, envir, ...) 23. │ └─base::eval(expr, envir, ...) 24. │ └─brms (local) .fun(...) 25. │ └─brms (local) .compile_model(model, ...) 26. │ ├─brms:::eval_silent(...) 27. │ │ └─base::eval(expr, envir) 28. │ │ └─base::eval(expr, envir) 29. │ └─brms::do_call(rstan::stan_model, args) 30. │ └─brms:::eval2(call, envir = args, enclos = envir) 31. │ └─base::eval(expr, envir, ...) 32. │ └─base::eval(expr, envir, ...) 33. │ └─rstan (local) .fun(model_code = .x1) 34. │ └─rstan::stanc(...) 35. └─base::.handleSimpleError(...) 36. └─testthat (local) h(simpleError(msg, call)) 37. └─rlang::abort(...) Execution halted Flavor: r-devel-linux-x86_64-fedora-clang