diseasystore

tests

Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [31s/37s]
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)
  > 
  > test_check("diseasystore")
  Loading required package: diseasystore
  #####
  Following backends will be tested:
     SQLite
  ####
  This message is displayed once per session.
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogl
...[truncated]...
ly to pattern 'Stratification could not be computed'
  ── Failure ('test-zzz.R:12:3'): data is not written locally ────────────────────
  Expected `dir(recursive = TRUE)` to have the same values as `current_files`.
  Actual: "_problems/test-DiseasystoreGoogleCovid19-11.R", "helper-setup.R", "setup.R", "test-0_R6_utils.R", "test-0_documentation.R", "test-0_linters.R", "test-0_rd_files.R", "test-DiseasystoreBase.R", "test-DiseasystoreEcdcRespitoryViruses.R", ...
  Expected: "helper-setup.R", "setup.R", "test-0_R6_utils.R", "test-0_documentation.R", "test-0_linters.R", "test-0_rd_files.R", "test-DiseasystoreBase.R", "test-DiseasystoreEcdcRespitoryViruses.R", "test-DiseasystoreGoogleCovid19.R", ...
  Needs: "_problems/test-DiseasystoreGoogleCovid19-11.R"
  
  [ FAIL 14 | WARN 0 | SKIP 12 | PASS 530 ]
  Error:
  ! Test failures.
  Warning messages:
  1: In connection_release(conn@ptr) : Already disconnected
  2: call dbDisconnect() when finished working with a connection 
  Execution halted

re-building of vignette outputs

Error(s) in re-building vignettes:
--- re-building ‘benchmarks.Rmd’ using rmarkdown
fatal: not a git repository (or any parent up to mount point /Volumes)
Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
--- finished re-building ‘benchmarks.Rmd’

--- re-building ‘diseasystore-ecdc-respiratory-viruses.Rmd’ using rmarkdown
--- finished re-building ‘diseasystore-ecdc-respiratory-viruses.Rmd’

--- re-building ‘diseasystore-google-covid-19.Rmd’ using rmarkdown
--- finished re-building ‘diseasystore-google-covid-19.Rmd’

--- re-building ‘diseasystore.Rmd’ using rmarkdown
--- finished re-building ‘diseasystore.Rmd’

--- re-building ‘extending-diseasystore-example.Rmd’ using rmarkdown

Quitting from extending-diseasystore-example.Rmd:554-558 [stratifications_positive_sex_age_plot]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `combine_vars()`:
! Faceting variables must have at least one value.
---
Backtra
...[truncated]...
plot_build(x)
  8.       └─ggplot2 (local) `ggplot_build.ggplot2::ggplot`(x)
  9.         └─layout$setup(data, plot@data, plot@plot_env)
 10.           └─ggplot2 (local) setup(..., self = self)
 11.             └─self$facet$compute_layout(data, self$facet_params)
 12.               └─ggplot2 (local) compute_layout(..., self = self)
 13.                 └─ggplot2::combine_vars(data, params$plot_env, vars, drop = params$drop)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'extending-diseasystore-example.Rmd' failed with diagnostics:
Faceting variables must have at least one value.
--- failed re-building ‘extending-diseasystore-example.Rmd’

Warning: Connection already closed.
--- re-building ‘extending-diseasystore.Rmd’ using rmarkdown
--- finished re-building ‘extending-diseasystore.Rmd’

SUMMARY: processing the following file failed:
  ‘extending-diseasystore-example.Rmd’

Error: Vignette re-building failed.
Execution halted

tests

Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [99s/116s]
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)
  > 
  > test_check("diseasystore")
  Loading required package: diseasystore
  #####
  Following backends will be tested:
     SQLite
  ####
  This message is displayed once per session.
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoogleCovid19-11.R
  Saving _problems/test-DiseasystoreGoog
...[truncated]...
ly to pattern 'Stratification could not be computed'
  ── Failure ('test-zzz.R:12:3'): data is not written locally ────────────────────
  Expected `dir(recursive = TRUE)` to have the same values as `current_files`.
  Actual: "_problems/test-DiseasystoreGoogleCovid19-11.R", "helper-setup.R", "setup.R", "test-0_R6_utils.R", "test-0_documentation.R", "test-0_linters.R", "test-0_rd_files.R", "test-DiseasystoreBase.R", "test-DiseasystoreEcdcRespitoryViruses.R", ...
  Expected: "helper-setup.R", "setup.R", "test-0_R6_utils.R", "test-0_documentation.R", "test-0_linters.R", "test-0_rd_files.R", "test-DiseasystoreBase.R", "test-DiseasystoreEcdcRespitoryViruses.R", "test-DiseasystoreGoogleCovid19.R", ...
  Needs: "_problems/test-DiseasystoreGoogleCovid19-11.R"
  
  [ FAIL 14 | WARN 0 | SKIP 12 | PASS 530 ]
  Error:
  ! Test failures.
  Warning messages:
  1: In connection_release(conn@ptr) : Already disconnected
  2: call dbDisconnect() when finished working with a connection 
  Execution halted