Last updated on 2025-07-29 17:49:14 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.1 | 13.82 | 269.63 | 283.45 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.1.1 | 10.60 | 255.62 | 266.22 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.2 | 471.74 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.2 | 360.85 | ERROR | |||
| r-devel-windows-x86_64 | 0.1.2 | 14.00 | 176.00 | 190.00 | ERROR | |
| r-release-linux-x86_64 | 0.1.1 | 13.07 | 350.98 | 364.05 | ERROR | |
| r-release-macos-arm64 | 0.1.2 | 115.00 | OK | |||
| r-release-macos-x86_64 | 0.1.2 | 164.00 | OK | |||
| r-release-windows-x86_64 | 0.1.1 | 16.00 | 222.00 | 238.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.2 | 134.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.1.2 | 242.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.1.1 | 22.00 | 275.00 | 297.00 | OK |
Version: 0.1.1
Check: examples
Result: ERROR
Running examples in ‘BoneDensityMapping-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: reorientate_landmarks
> ### Title: Reorientate landmarks
> ### Aliases: reorientate_landmarks
>
> ### ** Examples
>
> landmark_path <- system.file("extdata", "test_femur.mrk.json",
+ package = "BoneDensityMapping")
> reoriented_landmarks <- reorientate_landmarks(landmark_path)
Warning in file(con, "w") :
cannot open file '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BoneDensityMapping/extdata/test_femur.mrk.json': Read-only file system
Error in file(con, "w") : cannot open the connection
Calls: reorientate_landmarks -> write_json -> writeLines -> file
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.1.1
Check: examples
Result: ERROR
Running examples in ‘BoneDensityMapping-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: reorientate_landmarks
> ### Title: Reorientate landmarks
> ### Aliases: reorientate_landmarks
>
> ### ** Examples
>
> landmark_path <- system.file("extdata", "test_femur.mrk.json",
+ package = "BoneDensityMapping")
> reoriented_landmarks <- reorientate_landmarks(landmark_path)
Warning in file(con, "w") :
cannot open file '/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BoneDensityMapping/extdata/test_femur.mrk.json': Read-only file system
Error in file(con, "w") : cannot open the connection
Calls: reorientate_landmarks -> write_json -> writeLines -> file
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [20s/65s]
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(BoneDensityMapping)
>
> test_check("BoneDensityMapping")
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
Removed 100113 duplicate 0 unreferenced vertices and 0 duplicate faces
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.1/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
Removed 100113 duplicate 0 unreferenced vertices and 0 duplicate faces
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.1/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
Error in vcgImport(surface_mesh_filepath) : object 'type' not found
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
Removed 100113 duplicate 0 unreferenced vertices and 0 duplicate faces
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.1/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
Removed 100113 duplicate 0 unreferenced vertices and 0 duplicate faces
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
Removed 100113 duplicate 0 unreferenced vertices and 0 duplicate faces
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.1/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP001.stl'
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
Removed 100113 duplicate 0 unreferenced vertices and 0 duplicate faces
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.1/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 33 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-bone_scan_check.R:3:1'): (code run outside of `test_that()`) ───
Error in `download.file(url, bone_filepath, mode = "wb")`: cannot open URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Backtrace:
▆
1. └─utils::download.file(url, bone_filepath, mode = "wb") at test-bone_scan_check.R:3:1
── Error ('test-surface_points_new.R:3:1'): (code run outside of `test_that()`) ──
Error in `download.file(url, bone_filepath, mode = "wb")`: cannot open URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP001.stl'
Backtrace:
▆
1. └─utils::download.file(url, bone_filepath, mode = "wb") at test-surface_points_new.R:3:1
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 33 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.1.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘example-workflow-vignette.Rmd’ using rmarkdown
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP001.stl'
Content type 'application/octet-stream' length 1000084 bytes (976 KB)
==================================================
downloaded 976 KB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP001_resampled.nii.gz'
Content type 'application/octet-stream' length 15470935 bytes (14.8 MB)
==================================================
downloaded 14.8 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP002.stl'
Content type 'application/octet-stream' length 868984 bytes (848 KB)
==================================================
downloaded 848 KB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP002_resampled.nii.gz'
Content type 'application/octet-stream' length 13050596 bytes (12.4 MB)
==================================================
downloaded 12.4 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP003.stl'
Quitting from example-workflow-vignette.Rmd:92-118 [unnamed-chunk-12]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! cannot open URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP003.stl'
---
Backtrace:
▆
1. └─utils::download.file(mesh_url, mesh_path, mode = "wb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'example-workflow-vignette.Rmd' failed with diagnostics:
cannot open URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP003.stl'
--- failed re-building ‘example-workflow-vignette.Rmd’
SUMMARY: processing the following file failed:
‘example-workflow-vignette.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.1.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'example-workflow-vignette.Rmd' using rmarkdown
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_hip.nii.gz'
Content type 'application/octet-stream' length 13813973 bytes (13.2 MB)
==================================================
downloaded 13.2 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl'
Content type 'application/octet-stream' length 2002384 bytes (1.9 MB)
==================================================
downloaded 1.9 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP001.stl'
Content type 'application/octet-stream' length 1000084 bytes (976 KB)
==================================================
downloaded 976 KB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP001_resampled.nii.gz'
Content type 'application/octet-stream' length 15470935 bytes (14.8 MB)
==================================================
downloaded 14.8 MB
trying URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP002.stl'
Quitting from example-workflow-vignette.Rmd:92-118 [unnamed-chunk-12]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! cannot open URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP002.stl'
---
Backtrace:
▆
1. └─utils::download.file(mesh_url, mesh_path, mode = "wb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'example-workflow-vignette.Rmd' failed with diagnostics:
cannot open URL 'https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/SCAP002.stl'
--- failed re-building 'example-workflow-vignette.Rmd'
SUMMARY: processing the following file failed:
'example-workflow-vignette.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.1.1
Check: examples
Result: ERROR
Running examples in ‘BoneDensityMapping-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: reorientate_landmarks
> ### Title: Reorientate landmarks
> ### Aliases: reorientate_landmarks
>
> ### ** Examples
>
> landmark_path <- system.file("extdata", "test_femur.mrk.json",
+ package = "BoneDensityMapping")
> reoriented_landmarks <- reorientate_landmarks(landmark_path)
Warning in file(con, "w") :
cannot open file '/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/BoneDensityMapping/extdata/test_femur.mrk.json': Read-only file system
Error in file(con, "w") : cannot open the connection
Calls: reorientate_landmarks -> write_json -> writeLines -> file
Execution halted
Flavor: r-release-linux-x86_64