bvreede commented 4 weeks ago

Checklist (source):

Edit (by @PabRod): the checklist is outdated, no need to use it now.

PabRod commented 4 weeks ago

Relevant check results

Warnings

[ ] Checking for unstated dependencies in examples
```
❯ checking for unstated dependencies in examples ... OK
WARNING
‘qpdf’ is needed for checks on size reduction of PDFs
```
--as-cran only
- [ ] Checking PDF version of manual
- checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found: ! LaTeX Error: File `inconsolata.sty' not found.

Type X to quit or to proceed, or enter new name. (Default extension: sty)

! Emergency stop. <read *>

l.326 ^^M

! ==> Fatal error occurred, no output PDF file produced!

  ## Notes
  - [ ] Checking R code for possible problems

 ```r
 ❯ checking R code for possible problems ... NOTE
  add_lines: no visible global function definition for ‘end’
  add_lines: no visible binding for global variable ‘begin’
  add_lines: no visible binding for global variable ‘line’
  add_lines: no visible binding for global variable ‘end’
  convplot: no visible binding for global variable ‘begin’
  convplot: no visible binding for global variable ‘uid’
  convplot: no visible binding for global variable ‘scope’
  convplot: no visible binding for global variable ‘participant’
  convplot: no visible binding for global variable ‘end’
  convplot: no visible binding for global variable ‘participation’
  convplot: no visible global function definition for ‘case_when’
  convplot: no visible binding for global variable ‘striplength’
  convplot: no visible binding for global variable ‘utterance’
  convplot: no visible binding for global variable ‘participant_int’
  convplot: no visible global function definition for ‘theme_tufte’
  convplot: no visible binding for global variable ‘begin0’
  convplot: no visible binding for global variable ‘end0’
  convplot: no visible global function definition for ‘filter’
  convplot: no visible binding for global variable ‘focus’
  convplot: no visible binding for global variable ‘uttshort’
  generate_plots: no visible binding for global variable ‘lang’
  get_uid_metadata: no visible binding for global variable ‘begin’
  get_uid_metadata: no visible binding for global variable ‘distance’
  get_uids: no visible binding for global variable ‘language’
  plot_FTO: no visible binding for global variable ‘FTO’
  plot_FTO: no visible binding for global variable ‘duration’
  plot_conversation: no visible binding for global variable ‘striplength’
  plot_conversation: no visible binding for global variable ‘utterance’
  plot_conversation: no visible binding for global variable
    ‘participant_int’
  plot_conversation: no visible binding for global variable ‘begin0’
  plot_conversation: no visible binding for global variable ‘end0’
  plot_conversation: no visible binding for global variable ‘uttshort’
  plot_token_rank: no visible binding for global variable ‘n’
  plot_token_rank: no visible binding for global variable ‘word’
  plot_top_turn_types: no visible binding for global variable ‘n’
  plot_top_turn_types: no visible binding for global variable
    ‘utterance_stripped’
  plot_transitions: no visible binding for global variable ‘FTO’
  plot_turn_duration: no visible binding for global variable ‘duration’
  prepare_convplot: no visible binding for global variable ‘language’
  process_for_plot: no visible binding for global variable ‘n’
  Undefined global functions or variables:
    FTO begin begin0 case_when distance duration end end0 filter focus
    lang language line n participant participant_int participation scope
    striplength theme_tufte uid utterance utterance_stripped uttshort
    word
  Consider adding
    importFrom("stats", "end", "filter", "line")
  to your NAMESPACE file.

`--as-cran` only

[ ] Checking HTML version of manual

❯ checking HTML version of manual ... NOTE
Skipping checking HTML validation: no command 'tidy' found

[ ] Checking for non-standard things in the check directory

❯ checking for non-standard things in the check directory ... NOTE
Found the following files/directories:
‘talkr-manual.tex’

mdingemanse commented 3 weeks ago

I'm getting this from CRAN:

Dear maintainer,

package talkr_0.1.0.tar.gz does not pass the incoming checks automatically, please see the following pre-tests:

Windows

https://win-builder.r-project.org/incoming_pretest/talkr_0.1.0_20240822_140518/Windows/00check.log

* using log directory 'd:/RCompile/CRANincoming/R-devel/talkr.Rcheck'
* using R Under development (unstable) (2024-08-21 r87038 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'talkr/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'talkr' version '0.1.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Mark Dingemanse <mark.dingemanse@ru.nl>'

New submission

Unknown, possibly misspelled, fields in DESCRIPTION:
  'Remotes'

Suggests or Enhances not in mainstream repositories:
  ifadv

Found the following (possibly) invalid URLs:
  URL: git@github.com:elpaco-escience/talkr
    From: README.md
    Message: Invalid URI scheme
  URL: https://codecov.io/github/elpaco-escience/talkr (moved to https://app.codecov.io/github/elpaco-escience/talkr)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://fon.hum.uva.nl/IFA-SpokenLanguageCorpora/IFADVcorpus/
    From: inst/doc/workflows.html
    Status: Error
    Message: schannel: SNI or certificate check failed: SEC_E_WRONG_PRINCIPAL (0x80090322) - Der Zielprinzipalname ist falsch.
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package suggested but not available for checking: 'ifadv'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'talkr' can be installed ... OK
* checking installed package size ... OK
* 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 ... 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 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 ... NOTE
add_lines: no visible binding for global variable '.data'
add_lines: no visible global function definition for ':='
plot_density: no visible binding for global variable '.data'
plot_scatter: no visible binding for global variable '.data'
report: no visible binding for global variable '.data'
report_combined: no visible binding for global variable '.data'
theme_turnPlot: no visible global function definition for '%+replace%'
theme_turnPlot: no visible global function definition for 'theme'
theme_turnPlot: no visible global function definition for
  'element_text'
theme_turnPlot: no visible global function definition for 'margin'
theme_turnPlot: no visible global function definition for
  'element_blank'
tokenize: no visible binding for global variable '.data'
Undefined global functions or variables:
  %+replace% .data := element_blank element_text margin theme
* 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 ... NONE
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... ERROR
  Running 'testthat.R'
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(talkr)
  > 
  > test_check("talkr")
  [ FAIL 2 | WARN 1 | SKIP 1 | PASS 71 ]

  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-calculate_timing.R:5:3'

  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-plots.R:15:1'): (code run outside of `test_that()`) ────────────
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'ifadv'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test-plots.R:15:1
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)
  ── Error ('test-report.R:2:1'): (code run outside of `test_that()`) ────────────
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'ifadv'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test-report.R:2:1
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)

  [ FAIL 2 | WARN 1 | SKIP 1 | PASS 71 ]
  Deleting unused snapshots:
  • plots/plot_quality.png
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building 'workflows.Rmd' using rmarkdown

Quitting from lines 35-38 [unnamed-chunk-2] (workflows.Rmd)
Error: processing vignette 'workflows.Rmd' failed with diagnostics:
there is no package called 'ifadv'
--- failed re-building 'workflows.Rmd'

SUMMARY: processing the following file failed:
  'workflows.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [13s] OK
* checking HTML version of manual ... OK
* DONE
Status: 2 ERRORs, 3 NOTEs

Debian

https://win-builder.r-project.org/incoming_pretest/talkr_0.1.0_20240822_140518/Debian/00check.log

* using log directory ‘/srv/hornik/tmp/CRAN/talkr.Rcheck’
* using R Under development (unstable) (2024-08-21 r87038)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.8 (9)
    Debian flang-new version 18.1.8 (9)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘talkr/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘talkr’ version ‘0.1.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [3s/4s] NOTE
Maintainer: ‘Mark Dingemanse <mark.dingemanse@ru.nl>’

New submission

Unknown, possibly misspelled, fields in DESCRIPTION:
  ‘Remotes’

Suggests or Enhances not in mainstream repositories:
  ifadv

Found the following (possibly) invalid URLs:
  URL: git@github.com:elpaco-escience/talkr
    From: README.md
    Message: Invalid URI scheme
  URL: https://codecov.io/github/elpaco-escience/talkr (moved to https://app.codecov.io/github/elpaco-escience/talkr)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://fon.hum.uva.nl/IFA-SpokenLanguageCorpora/IFADVcorpus/
    From: inst/doc/workflows.html
    Status: Error
    Message: SSL: certificate subject name (www.fon.hum.uva.nl) does not match target hostname 'fon.hum.uva.nl'
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package suggested but not available for checking: ‘ifadv’
* 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 ‘talkr’ can be installed ... [2s/2s] OK
* 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 ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
* checking loading without being on the library search path ... [0s/0s] 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 ... [4s/4s] NOTE
add_lines: no visible binding for global variable ‘.data’
add_lines: no visible global function definition for ‘:=’
plot_density: no visible binding for global variable ‘.data’
plot_scatter: no visible binding for global variable ‘.data’
report: no visible binding for global variable ‘.data’
report_combined: no visible binding for global variable ‘.data’
theme_turnPlot: no visible global function definition for ‘%+replace%’
theme_turnPlot: no visible global function definition for ‘theme’
theme_turnPlot: no visible global function definition for
  ‘element_text’
theme_turnPlot: no visible global function definition for ‘margin’
theme_turnPlot: no visible global function definition for
  ‘element_blank’
tokenize: no visible binding for global variable ‘.data’
Undefined global functions or variables:
  %+replace% .data := element_blank element_text margin theme
* checking Rd files ... [0s/0s] 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 ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [2s/2s] ERROR
  Running ‘testthat.R’ [2s/2s]
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(talkr)
  > 
  > test_check("talkr")
  [ FAIL 2 | WARN 0 | SKIP 1 | PASS 71 ]

  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-calculate_timing.R:5:3'

  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-plots.R:15:1'): (code run outside of `test_that()`) ────────────
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'ifadv'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test-plots.R:15:1
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)
  ── Error ('test-report.R:2:1'): (code run outside of `test_that()`) ────────────
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'ifadv'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test-report.R:2:1
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)

  [ FAIL 2 | WARN 0 | SKIP 1 | PASS 71 ]
  Deleting unused snapshots:
  • plots/plot_quality.png
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [1s/1s] ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘workflows.Rmd’ using rmarkdown

Quitting from lines 35-38 [unnamed-chunk-2] (workflows.Rmd)
Error: processing vignette 'workflows.Rmd' failed with diagnostics:
there is no package called 'ifadv'
--- failed re-building ‘workflows.Rmd’

SUMMARY: processing the following file failed:
  ‘workflows.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [0s/0s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 2 ERRORs, 3 NOTEs

bvreede commented 3 weeks ago

Tagging @pablo! Are you able to tackle these?

Most of it, as far as I can see, hinges on ifadv installation (btw: does this need to be called twice in the description file? Once via Remotes, once separately?). Not sure what the fix is, so I hope Pablo has an idea?

Thanks!!

On Fri, 23 Aug 2024 at 10:55, mdingemanse @.***> wrote:

I'm getting this from CRAN:

Dear maintainer,

package talkr_0.1.0.tar.gz does not pass the incoming checks automatically, please see the following pre-tests: Windows

https://win-builder.r-project.org/incoming_pretest/talkr_0.1.0_20240822_140518/Windows/00check.log

using log directory 'd:/RCompile/CRANincoming/R-devel/talkr.Rcheck'

using R Under development (unstable) (2024-08-21 r87038 ucrt)

using platform: x86_64-w64-mingw32

R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0

running under: Windows Server 2022 x64 (build 20348)

using session charset: UTF-8

checking for file 'talkr/DESCRIPTION' ... OK

checking extension type ... Package

this is package 'talkr' version '0.1.0'

package encoding: UTF-8

checking CRAN incoming feasibility ... NOTE Maintainer: 'Mark Dingemanse @.***>'

New submission

Unknown, possibly misspelled, fields in DESCRIPTION: 'Remotes'

Suggests or Enhances not in mainstream repositories: ifadv

Found the following (possibly) invalid URLs: URL: @.***:elpaco-escience/talkr From: README.md Message: Invalid URI scheme URL: https://codecov.io/github/elpaco-escience/talkr (moved to https://app.codecov.io/github/elpaco-escience/talkr) From: README.md Status: 301 Message: Moved Permanently URL: https://fon.hum.uva.nl/IFA-SpokenLanguageCorpora/IFADVcorpus/ From: inst/doc/workflows.html Status: Error Message: schannel: SNI or certificate check failed: SEC_E_WRONG_PRINCIPAL (0x80090322) - Der Zielprinzipalname ist falsch. For content that is 'Moved Permanently', please change http to https, add trailing slashes, or replace the old by the new URL.

checking package namespace information ... OK

checking package dependencies ... NOTE Package suggested but not available for checking: 'ifadv'

checking if this is a source package ... OK

checking if there is a namespace ... OK

checking for hidden files and directories ... OK

checking for portable file names ... OK

checking whether package 'talkr' can be installed ... OK

checking installed package size ... OK

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 ... 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 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 ... NOTE add_lines: no visible binding for global variable '.data' add_lines: no visible global function definition for ':=' plot_density: no visible binding for global variable '.data' plot_scatter: no visible binding for global variable '.data' report: no visible binding for global variable '.data' report_combined: no visible binding for global variable '.data' theme_turnPlot: no visible global function definition for '%+replace%' theme_turnPlot: no visible global function definition for 'theme' theme_turnPlot: no visible global function definition for 'element_text' theme_turnPlot: no visible global function definition for 'margin' theme_turnPlot: no visible global function definition for 'element_blank' tokenize: no visible binding for global variable '.data' Undefined global functions or variables: %+replace% .data := element_blank element_text margin theme

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 ... NONE

checking for unstated dependencies in 'tests' ... OK

checking tests ... ERROR Running 'testthat.R' 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(talkr)

test_check("talkr") [ FAIL 2 | WARN 1 | SKIP 1 | PASS 71 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test-calculate_timing.R:5:3'

══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-plots.R:15:1'): (code run outside of test_that()) ──────────── <packageNotFoundError/error/condition> Error in loadNamespace(x): there is no package called 'ifadv' Backtrace: ▆

└─base::loadNamespace(x) at test-plots.R:15:1

└─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)

└─base (local) withOneRestart(expr, restarts[[1L]])

└─base (local) doWithOneRestart(return(expr), restart) ── Error ('test-report.R:2:1'): (code run outside of test_that()) ──────────── <packageNotFoundError/error/condition> Error in loadNamespace(x): there is no package called 'ifadv' Backtrace: ▆

└─base::loadNamespace(x) at test-report.R:2:1

└─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)

└─base (local) withOneRestart(expr, restarts[[1L]])

└─base (local) doWithOneRestart(return(expr), restart)

[ FAIL 2 | WARN 1 | SKIP 1 | PASS 71 ] Deleting unused snapshots: • plots/plot_quality.png Error: Test failures Execution halted

checking for unstated dependencies in vignettes ... OK

checking package vignettes ... OK

checking re-building of vignette outputs ... ERROR Error(s) in re-building vignettes: --- re-building 'workflows.Rmd' using rmarkdown

Quitting from lines 35-38 [unnamed-chunk-2] (workflows.Rmd) Error: processing vignette 'workflows.Rmd' failed with diagnostics: there is no package called 'ifadv' --- failed re-building 'workflows.Rmd'

SUMMARY: processing the following file failed: 'workflows.Rmd'

Error: Vignette re-building failed. Execution halted

checking PDF version of manual ... [13s] OK

checking HTML version of manual ... OK

DONE Status: 2 ERRORs, 3 NOTEs

Debian

https://win-builder.r-project.org/incoming_pretest/talkr_0.1.0_20240822_140518/Debian/00check.log

using log directory ‘/srv/hornik/tmp/CRAN/talkr.Rcheck’

using R Under development (unstable) (2024-08-21 r87038)

using platform: x86_64-pc-linux-gnu

R was compiled by Debian clang version 18.1.8 (9) Debian flang-new version 18.1.8 (9)

running under: Debian GNU/Linux trixie/sid

using session charset: UTF-8

checking for file ‘talkr/DESCRIPTION’ ... OK

checking extension type ... Package

this is package ‘talkr’ version ‘0.1.0’

package encoding: UTF-8

checking CRAN incoming feasibility ... [3s/4s] NOTE Maintainer: ‘Mark Dingemanse @.***>’

New submission

Unknown, possibly misspelled, fields in DESCRIPTION: ‘Remotes’

Suggests or Enhances not in mainstream repositories: ifadv

Found the following (possibly) invalid URLs: URL: @.***:elpaco-escience/talkr From: README.md Message: Invalid URI scheme URL: https://codecov.io/github/elpaco-escience/talkr (moved to https://app.codecov.io/github/elpaco-escience/talkr) From: README.md Status: 301 Message: Moved Permanently URL: https://fon.hum.uva.nl/IFA-SpokenLanguageCorpora/IFADVcorpus/ From: inst/doc/workflows.html Status: Error Message: SSL: certificate subject name (www.fon.hum.uva.nl) does not match target hostname 'fon.hum.uva.nl' For content that is 'Moved Permanently', please change http to https, add trailing slashes, or replace the old by the new URL.

checking package namespace information ... OK

checking package dependencies ... NOTE Package suggested but not available for checking: ‘ifadv’

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 ‘talkr’ can be installed ... [2s/2s] OK

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 ... [0s/0s] OK

checking whether the package can be loaded with stated dependencies ... [0s/0s] OK

checking whether the package can be unloaded cleanly ... [0s/0s] OK

checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK

checking whether the namespace can be unloaded cleanly ... [0s/0s] OK

checking loading without being on the library search path ... [0s/0s] 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 ... [4s/4s] NOTE add_lines: no visible binding for global variable ‘.data’ add_lines: no visible global function definition for ‘:=’ plot_density: no visible binding for global variable ‘.data’ plot_scatter: no visible binding for global variable ‘.data’ report: no visible binding for global variable ‘.data’ report_combined: no visible binding for global variable ‘.data’ theme_turnPlot: no visible global function definition for ‘%+replace%’ theme_turnPlot: no visible global function definition for ‘theme’ theme_turnPlot: no visible global function definition for ‘element_text’ theme_turnPlot: no visible global function definition for ‘margin’ theme_turnPlot: no visible global function definition for ‘element_blank’ tokenize: no visible binding for global variable ‘.data’ Undefined global functions or variables: %+replace% .data := element_blank element_text margin theme

checking Rd files ... [0s/0s] 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 ... NONE

checking for unstated dependencies in ‘tests’ ... OK

checking tests ... [2s/2s] ERROR Running ‘testthat.R’ [2s/2s] 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(talkr)

test_check("talkr") [ FAIL 2 | WARN 0 | SKIP 1 | PASS 71 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test-calculate_timing.R:5:3'

══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-plots.R:15:1'): (code run outside of test_that()) ──────────── <packageNotFoundError/error/condition> Error in loadNamespace(x): there is no package called 'ifadv' Backtrace: ▆

└─base::loadNamespace(x) at test-plots.R:15:1

└─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)

└─base (local) withOneRestart(expr, restarts[[1L]])

└─base (local) doWithOneRestart(return(expr), restart) ── Error ('test-report.R:2:1'): (code run outside of test_that()) ──────────── <packageNotFoundError/error/condition> Error in loadNamespace(x): there is no package called 'ifadv' Backtrace: ▆

└─base::loadNamespace(x) at test-report.R:2:1

└─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)

└─base (local) withOneRestart(expr, restarts[[1L]])

└─base (local) doWithOneRestart(return(expr), restart)

[ FAIL 2 | WARN 0 | SKIP 1 | PASS 71 ] Deleting unused snapshots: • plots/plot_quality.png Error: Test failures Execution halted

checking for unstated dependencies in vignettes ... OK

checking package vignettes ... OK

checking re-building of vignette outputs ... [1s/1s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘workflows.Rmd’ using rmarkdown

Quitting from lines 35-38 [unnamed-chunk-2] (workflows.Rmd) Error: processing vignette 'workflows.Rmd' failed with diagnostics: there is no package called 'ifadv' --- failed re-building ‘workflows.Rmd’

SUMMARY: processing the following file failed: ‘workflows.Rmd’

Error: Vignette re-building failed. Execution halted

checking PDF version of manual ... [3s/3s] OK

checking HTML version of manual ... [0s/0s] OK

checking for non-standard things in the check directory ... OK

checking for detritus in the temp directory ... OK

DONE Status: 2 ERRORs, 3 NOTEs

— Reply to this email directly, view it on GitHub https://github.com/elpaco-escience/talkr/issues/61#issuecomment-2306623776, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABL3FTKGFUDV7EMRKWJ32ILZS32IHAVCNFSM6AAAAABMXIX5MSVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDGMBWGYZDGNZXGY . You are receiving this because you authored the thread.Message ID: @.***>

PabRod commented 3 weeks ago

The ifadv package seems to be the main offender, indeed. One question for @mdingemanse: do they give you the option to answer these emails?

PabRod commented 3 weeks ago

Splitted into issue #117

PabRod commented 3 weeks ago

does this need to be called twice in the description file? Once via Remotes, once separately?)

To the best of my knowledge, yes.

mdingemanse commented 3 weeks ago

The ifadv package seems to be the main offender, indeed. One question for @mdingemanse: do they give you the option to answer these emails?

I've forwarded the email to you. Looks like they want to see a new submission that fixes the problem.

mdingemanse commented 1 week ago

Is there a way for us to check whether with the recent changes it is now passing the test? Would love to get some human eyes to look at it for CRAN!

PabRod commented 1 week ago

I'd say we are ready for a new submission. Do you want me to do it, or prefer to try it yourself? It is quite straightforward and takes no more than 10 minutes.

mdingemanse commented 5 days ago

I'd be happy if you can do this round @PabRod but once we're in the same place perhaps you can show me how it works.

PabRod commented 12 hours ago

Dear @mdingemanse, you'd like to know that I just resubmitted.

Just so you know, the steps are:

Go to RStudio's Build menu
Make sure Check passes
Build the package, it will generate a *.<version>.tar.gz file
Go to CRAN's submission page and fill in the blanks. And rejoice that most of them are auto-filled from DESCRIPTION

elpaco-escience / talkr

CRAN submission #61

Relevant check results

Warnings

`--as-cran` only

`--as-cran` only

Windows

Debian

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

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

elpaco-escience / talkr

CRAN submission #61

Relevant check results

Warnings

--as-cran only

--as-cran only

Windows

Debian

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

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

`--as-cran` only

`--as-cran` only