Last updated on 2024-07-16 09:50:10 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.1 | 6.28 | 1595.71 | 1601.99 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.1 | 4.47 | 708.14 | 712.61 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.1 | 660.05 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.1 | 647.93 | ERROR | |||
| r-devel-windows-x86_64 | 0.1.1 | 7.00 | 678.00 | 685.00 | ERROR | |
| r-patched-linux-x86_64 | 0.1.1 | 3.94 | 1494.95 | 1498.89 | OK | |
| r-release-linux-x86_64 | 0.1.1 | 4.74 | 981.17 | 985.91 | ERROR | |
| r-release-macos-arm64 | 0.1.1 | 246.00 | OK | |||
| r-release-macos-x86_64 | 0.1.1 | 501.00 | OK | |||
| r-release-windows-x86_64 | 0.1.1 | 7.00 | 977.00 | 984.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.1 | 326.00 | ERROR | |||
| r-oldrel-macos-x86_64 | 0.1.1 | 486.00 | ERROR | |||
| r-oldrel-windows-x86_64 | 0.1.1 | 8.00 | 1364.00 | 1372.00 | OK |
Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘a01_Introduction.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-6-1.png
672x480 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 14573 bytes
Input file size = 14663 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
Output IDAT size = 12889 bytes (1684 bytes decrease)
Output file size = 12967 bytes (1696 bytes = 11.57% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-9-1.png
672x480 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 6402 bytes
Input file size = 7248 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
Output IDAT size = 4816 bytes (1586 bytes decrease)
Output file size = 4894 bytes (2354 bytes = 32.48% decrease)
--- finished re-building ‘a01_Introduction.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 57-74 [unnamed-chunk-4] (a02_Generate_a_sequence_cohort_set.Rmd)
Error: processing vignette 'a02_Generate_a_sequence_cohort_set.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a03_Summarise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a03_Summarise_sequence_ratios.Rmd)
Error: processing vignette 'a03_Summarise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a03_Summarise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a04_Visualise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a04_Visualise_sequence_ratios.Rmd)
Error: processing vignette 'a04_Visualise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a04_Visualise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a05_Summarise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a05_Summarise_temporal_symmetry.Rmd)
Error: processing vignette 'a05_Summarise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a05_Summarise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a06_Visualise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a06_Visualise_temporal_symmetry.Rmd)
Error: processing vignette 'a06_Visualise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a06_Visualise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
SUMMARY: processing the following files failed:
‘a02_Generate_a_sequence_cohort_set.Rmd’
‘a03_Summarise_sequence_ratios.Rmd’
‘a04_Visualise_sequence_ratios.Rmd’
‘a05_Summarise_temporal_symmetry.Rmd’
‘a06_Visualise_temporal_symmetry.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘a01_Introduction.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-6-1.png
672x480 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 14573 bytes
Input file size = 14663 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
Output IDAT size = 12889 bytes (1684 bytes decrease)
Output file size = 12967 bytes (1696 bytes = 11.57% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-9-1.png
672x480 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 6402 bytes
Input file size = 7248 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
Output IDAT size = 4816 bytes (1586 bytes decrease)
Output file size = 4894 bytes (2354 bytes = 32.48% decrease)
--- finished re-building ‘a01_Introduction.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 57-74 [unnamed-chunk-4] (a02_Generate_a_sequence_cohort_set.Rmd)
Error: processing vignette 'a02_Generate_a_sequence_cohort_set.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a03_Summarise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a03_Summarise_sequence_ratios.Rmd)
Error: processing vignette 'a03_Summarise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a03_Summarise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a04_Visualise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a04_Visualise_sequence_ratios.Rmd)
Error: processing vignette 'a04_Visualise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a04_Visualise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a05_Summarise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a05_Summarise_temporal_symmetry.Rmd)
Error: processing vignette 'a05_Summarise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a05_Summarise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a06_Visualise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a06_Visualise_temporal_symmetry.Rmd)
Error: processing vignette 'a06_Visualise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a06_Visualise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
SUMMARY: processing the following files failed:
‘a02_Generate_a_sequence_cohort_set.Rmd’
‘a03_Summarise_sequence_ratios.Rmd’
‘a04_Visualise_sequence_ratios.Rmd’
‘a05_Summarise_temporal_symmetry.Rmd’
‘a06_Visualise_temporal_symmetry.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘a01_Introduction.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-devel/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-6-1.png
672x480 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 14573 bytes
Input file size = 14663 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
Output IDAT size = 12889 bytes (1684 bytes decrease)
Output file size = 12967 bytes (1696 bytes = 11.57% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-devel/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-9-1.png
672x480 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 6402 bytes
Input file size = 7248 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
Output IDAT size = 4816 bytes (1586 bytes decrease)
Output file size = 4894 bytes (2354 bytes = 32.48% decrease)
--- finished re-building ‘a01_Introduction.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 57-74 [unnamed-chunk-4] (a02_Generate_a_sequence_cohort_set.Rmd)
Error: processing vignette 'a02_Generate_a_sequence_cohort_set.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a03_Summarise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a03_Summarise_sequence_ratios.Rmd)
Error: processing vignette 'a03_Summarise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a03_Summarise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a04_Visualise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a04_Visualise_sequence_ratios.Rmd)
Error: processing vignette 'a04_Visualise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a04_Visualise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a05_Summarise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a05_Summarise_temporal_symmetry.Rmd)
Error: processing vignette 'a05_Summarise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a05_Summarise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a06_Visualise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a06_Visualise_temporal_symmetry.Rmd)
Error: processing vignette 'a06_Visualise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a06_Visualise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
SUMMARY: processing the following files failed:
‘a02_Generate_a_sequence_cohort_set.Rmd’
‘a03_Summarise_sequence_ratios.Rmd’
‘a04_Visualise_sequence_ratios.Rmd’
‘a05_Summarise_temporal_symmetry.Rmd’
‘a06_Visualise_temporal_symmetry.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'a01_Introduction.Rmd' using rmarkdown
--- finished re-building 'a01_Introduction.Rmd'
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building 'a02_Generate_a_sequence_cohort_set.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 57-74 [unnamed-chunk-4] (a02_Generate_a_sequence_cohort_set.Rmd)
Error: processing vignette 'a02_Generate_a_sequence_cohort_set.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building 'a02_Generate_a_sequence_cohort_set.Rmd'
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building 'a03_Summarise_sequence_ratios.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a03_Summarise_sequence_ratios.Rmd)
Error: processing vignette 'a03_Summarise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building 'a03_Summarise_sequence_ratios.Rmd'
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building 'a04_Visualise_sequence_ratios.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a04_Visualise_sequence_ratios.Rmd)
Error: processing vignette 'a04_Visualise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building 'a04_Visualise_sequence_ratios.Rmd'
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building 'a05_Summarise_temporal_symmetry.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a05_Summarise_temporal_symmetry.Rmd)
Error: processing vignette 'a05_Summarise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building 'a05_Summarise_temporal_symmetry.Rmd'
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building 'a06_Visualise_temporal_symmetry.Rmd' using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a06_Visualise_temporal_symmetry.Rmd)
Error: processing vignette 'a06_Visualise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building 'a06_Visualise_temporal_symmetry.Rmd'
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
SUMMARY: processing the following files failed:
'a02_Generate_a_sequence_cohort_set.Rmd'
'a03_Summarise_sequence_ratios.Rmd'
'a04_Visualise_sequence_ratios.Rmd'
'a05_Summarise_temporal_symmetry.Rmd'
'a06_Visualise_temporal_symmetry.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘a01_Introduction.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-6-1.png
672x480 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 14573 bytes
Input file size = 14663 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889
Output IDAT size = 12889 bytes (1684 bytes decrease)
Output file size = 12967 bytes (1696 bytes = 11.57% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/CohortSymmetry.Rcheck/vign_test/CohortSymmetry/vignettes/a01_Introduction_files/figure-html/unnamed-chunk-9-1.png
672x480 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 6402 bytes
Input file size = 7248 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4816
Output IDAT size = 4816 bytes (1586 bytes decrease)
Output file size = 4894 bytes (2354 bytes = 32.48% decrease)
--- finished re-building ‘a01_Introduction.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 57-74 [unnamed-chunk-4] (a02_Generate_a_sequence_cohort_set.Rmd)
Error: processing vignette 'a02_Generate_a_sequence_cohort_set.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a02_Generate_a_sequence_cohort_set.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a03_Summarise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a03_Summarise_sequence_ratios.Rmd)
Error: processing vignette 'a03_Summarise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a03_Summarise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a04_Visualise_sequence_ratios.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a04_Visualise_sequence_ratios.Rmd)
Error: processing vignette 'a04_Visualise_sequence_ratios.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a04_Visualise_sequence_ratios.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a05_Summarise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 32-59 [unnamed-chunk-3] (a05_Summarise_temporal_symmetry.Rmd)
Error: processing vignette 'a05_Summarise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a05_Summarise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
--- re-building ‘a06_Visualise_temporal_symmetry.Rmd’ using rmarkdown
trying URL 'https://example-data.ohdsi.dev/GiBleed.zip'
Content type 'application/zip' length 6754786 bytes (6.4 MB)
==================================================
downloaded 6.4 MB
Quitting from lines 36-71 [unnamed-chunk-3] (a06_Visualise_temporal_symmetry.Rmd)
Error: processing vignette 'a06_Visualise_temporal_symmetry.Rmd' failed with diagnostics:
unused argument (withConceptDetails = FALSE)
--- failed re-building ‘a06_Visualise_temporal_symmetry.Rmd’
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
SUMMARY: processing the following files failed:
‘a02_Generate_a_sequence_cohort_set.Rmd’
‘a03_Summarise_sequence_ratios.Rmd’
‘a04_Visualise_sequence_ratios.Rmd’
‘a05_Summarise_temporal_symmetry.Rmd’
‘a06_Visualise_temporal_symmetry.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.1.1
Check: running R code from vignettes
Result: ERROR
Errors in running code in vignettes:
when running code in ‘a01_Introduction.Rmd’
...
> library(here)
here() starts at /private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/Rtmpnjwx5m/file16c285e4b88cc/vignettes
> knitr::include_graphics(here("vignettes/workflow.png"))
When sourcing ‘a01_Introduction.R’:
Error: Cannot find the file(s): "/private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/Rtmpnjwx5m/file16c285e4b88cc/vignettes/vignettes/workflow.png"
Execution halted
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
when running code in ‘a02_Generate_a_sequence_cohort_set.Rmd’
...
> library(here)
here() starts at /private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/RtmpGVK4dd/file16cfc35e4bb88/vignettes
> knitr::include_graphics(here("vignettes/1-NoRestrictions.png"))
When sourcing ‘a02_Generate_a_sequence_cohort_set.R’:
Error: Cannot find the file(s): "/private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/RtmpGVK4dd/file16cfc35e4bb88/vignettes/vignettes/1-NoRestrictions.png"
Execution halted
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
‘a01_Introduction.Rmd’ using ‘UTF-8’... failed
‘a02_Generate_a_sequence_cohort_set.Rmd’ using ‘UTF-8’... failed
‘a03_Summarise_sequence_ratios.Rmd’ using ‘UTF-8’... [9s/9s] OK
‘a04_Visualise_sequence_ratios.Rmd’ using ‘UTF-8’... [10s/10s] OK
‘a05_Summarise_temporal_symmetry.Rmd’ using ‘UTF-8’... [10s/10s] OK
‘a06_Visualise_temporal_symmetry.Rmd’ using ‘UTF-8’... [11s/11s] OK
Flavor: r-oldrel-macos-arm64
Version: 0.1.1
Check: running R code from vignettes
Result: ERROR
Errors in running code in vignettes:
when running code in ‘a01_Introduction.Rmd’
...
> library(here)
here() starts at /private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpIzs0mw/filec8f6392d5b34/vignettes
> knitr::include_graphics(here("vignettes/workflow.png"))
When sourcing ‘a01_Introduction.R’:
Error: Cannot find the file(s): "/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpIzs0mw/filec8f6392d5b34/vignettes/vignettes/workflow.png"
Execution halted
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
when running code in ‘a02_Generate_a_sequence_cohort_set.Rmd’
...
> library(here)
here() starts at /private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpQLyq6o/filec96c38767643/vignettes
> knitr::include_graphics(here("vignettes/1-NoRestrictions.png"))
When sourcing ‘a02_Generate_a_sequence_cohort_set.R’:
Error: Cannot find the file(s): "/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpQLyq6o/filec96c38767643/vignettes/vignettes/1-NoRestrictions.png"
Execution halted
Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
‘a01_Introduction.Rmd’ using ‘UTF-8’... failed
‘a02_Generate_a_sequence_cohort_set.Rmd’ using ‘UTF-8’... failed
‘a03_Summarise_sequence_ratios.Rmd’ using ‘UTF-8’... [21s/20s] OK
‘a04_Visualise_sequence_ratios.Rmd’ using ‘UTF-8’... [21s/21s] OK
‘a05_Summarise_temporal_symmetry.Rmd’ using ‘UTF-8’... [20s/20s] OK
‘a06_Visualise_temporal_symmetry.Rmd’ using ‘UTF-8’... [19s/19s] OK
Flavor: r-oldrel-macos-x86_64