- using R version 4.4.2 Patched (2024-11-21 r87360)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
gcc-14 (Debian 14.2.0-8) 14.2.0
GNU Fortran (Debian 14.2.0-8) 14.2.0
- running under: Debian GNU/Linux trixie/sid
- using session charset: UTF-8
- checking for file ‘mobsim/DESCRIPTION’ ... OK
- checking extension type ... Package
- this is package ‘mobsim’ version ‘0.3.1’
- 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 ‘mobsim’ can be installed ... OK
See the install log for details.
- used C++ compiler: ‘g++-14 (Debian 14.2.0-8) 14.2.0’
- checking package directory ... OK
- checking for future file timestamps ... 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 ... [3s/6s] OK
- checking whether the package can be loaded with stated dependencies ... [3s/4s] OK
- checking whether the package can be unloaded cleanly ... [3s/5s] OK
- checking whether the namespace can be loaded with stated dependencies ... [3s/4s] OK
- checking whether the namespace can be unloaded cleanly ... [3s/5s] OK
- checking loading without being on the library search path ... [3s/6s] OK
- checking use of S3 registration ... 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 ... [17s/23s] OK
- checking Rd files ... [0s/1s] 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 line endings in C/C++/Fortran sources/headers ... OK
- checking pragmas in C/C++ headers and code ... OK
- checking compilation flags used ... OK
- checking compiled code ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... [8s/12s] OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [22s/15s] ERROR
Running ‘testthat.R’ [22s/15s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(mobsim)
>
> test_check("mobsim")
Starting 2 test processes
[ FAIL 4 | WARN 1 | SKIP 11 | PASS 154 ]
══ Skipped tests (11) ══════════════════════════════════════════════════════════
• On CRAN (8): 'test_sampling-sample_quadrats().R:43:4',
'test_sampling-sample_quadrats().R:179:4',
'test_simulation_functions-poisson_process.r:2:4',
'test_simulation_functions-poisson_process.r:6:4',
'test_simulation_functions-sim_sad().R:31:4',
'test_simulation_functions-thomas_process.r:3:3',
'test_simulation_functions-thomas_process.r:7:3',
'test_simulation_functions-thomas_process.r:12:3'
• sample_quadrats() ensures that this does not happen (3):
'test_sampling-sampling_random_with_overlap.R:38:4',
'test_sampling-sampling_random_without_overlap_bruteforce.R:38:4',
'test_sampling-sampling_random_without_overlap_spatstat.R:38:4'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_patterns_of_biodiversity_functions.R:14:4'): rare_curve() - classes and dimensions are correct ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'vctrs'
Backtrace:
▆
1. ├─testthat::expect_vector(rc1, ptype = numeric(), size = N) at test_patterns_of_biodiversity_functions.R:14:4
2. │ └─base::tryCatch(...)
3. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
6. └─base::loadNamespace(x)
7. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
8. └─base (local) withOneRestart(expr, restarts[[1L]])
9. └─base (local) doWithOneRestart(return(expr), restart)
── Error ('test_patterns_of_biodiversity_functions.R:24:4'): rare_curve() - handles 0 and NA values as expected ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'vctrs'
Backtrace:
▆
1. ├─testthat::expect_vector(rare_curve(sad0), size = 50L) at test_patterns_of_biodiversity_functions.R:24:4
2. │ └─base::tryCatch(...)
3. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
6. └─base::loadNamespace(x)
7. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
8. └─base (local) withOneRestart(expr, restarts[[1L]])
9. └─base (local) doWithOneRestart(return(expr), restart)
── Error ('test_patterns_of_biodiversity_functions.R:34:4'): div_rect() & div_rand_rect() - return expected value classes and length ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'vctrs'
Backtrace:
▆
1. ├─testthat::expect_vector(div1, ptype = numeric(), size = 6) at test_patterns_of_biodiversity_functions.R:34:4
2. │ └─base::tryCatch(...)
3. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
6. └─base::loadNamespace(x)
7. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
8. └─base (local) withOneRestart(expr, restarts[[1L]])
9. └─base (local) doWithOneRestart(return(expr), restart)
── Error ('test_sampling-sample_quadrats().R:32:4'): dimensions are as expected ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'vctrs'
Backtrace:
▆
1. ├─testthat::expect_vector(comm_mat, size = 2L) at test_sampling-sample_quadrats().R:32:4
2. │ └─base::tryCatch(...)
3. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
6. └─base::loadNamespace(x)
7. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
8. └─base (local) withOneRestart(expr, restarts[[1L]])
9. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 4 | WARN 1 | SKIP 11 | PASS 154 ]
Error: Test failures
Execution halted
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [50s/82s] OK
- checking PDF version of manual ... [5s/7s] OK
- checking HTML version of manual ... [2s/3s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 ERROR