CRAN Package Check Results for Package PatientProfiles

Last updated on 2024-07-19 05:57:40 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.0 9.36 2752.82 2762.18 ERROR
r-devel-linux-x86_64-debian-gcc 1.1.0 7.43 1924.68 1932.11 ERROR
r-devel-linux-x86_64-fedora-clang 1.1.0 2045.93 ERROR
r-devel-linux-x86_64-fedora-gcc 1.1.0 1604.64 ERROR
r-devel-windows-x86_64 1.1.0 9.00 1026.00 1035.00 ERROR
r-patched-linux-x86_64 1.1.0 10.07 2622.73 2632.80 ERROR
r-release-linux-x86_64 1.1.0 5.56 2654.45 2660.01 ERROR
r-release-macos-arm64 1.1.0 402.00 OK
r-release-macos-x86_64 1.1.0 807.00 OK
r-release-windows-x86_64 1.1.0 9.00 1048.00 1057.00 ERROR
r-oldrel-macos-arm64 1.1.0 511.00 OK
r-oldrel-macos-x86_64 1.1.0 932.00 OK
r-oldrel-windows-x86_64 1.1.0 12.00 1520.00 1532.00 ERROR

Check Details

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘cohort-intersect.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PatientProfiles.Rcheck/vign_test/PatientProfiles/vignettes/cohort-intersect_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16730 bytes Input file size = 16832 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 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 IDAT size = 14956 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 = 5 IDAT size = 14956 Output IDAT size = 14956 bytes (1774 bytes decrease) Output file size = 15034 bytes (1798 bytes = 10.68% decrease) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building ‘cohort-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building ‘concept-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘demographics.rmd’ using rmarkdown --- finished re-building ‘demographics.rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘summarise.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 --- finished re-building ‘summarise.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘table-intersect.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 --- finished re-building ‘table-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: ‘concept-intersect.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘cohort-intersect.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/PatientProfiles.Rcheck/vign_test/PatientProfiles/vignettes/cohort-intersect_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16730 bytes Input file size = 16832 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 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 IDAT size = 14956 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 = 5 IDAT size = 14956 Output IDAT size = 14956 bytes (1774 bytes decrease) Output file size = 15034 bytes (1798 bytes = 10.68% decrease) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building ‘cohort-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building ‘concept-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘demographics.rmd’ using rmarkdown --- finished re-building ‘demographics.rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘summarise.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 --- finished re-building ‘summarise.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘table-intersect.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 --- finished re-building ‘table-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: ‘concept-intersect.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘cohort-intersect.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/PatientProfiles.Rcheck/vign_test/PatientProfiles/vignettes/cohort-intersect_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16730 bytes Input file size = 16832 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 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 IDAT size = 14956 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 = 5 IDAT size = 14956 Output IDAT size = 14956 bytes (1774 bytes decrease) Output file size = 15034 bytes (1798 bytes = 10.68% decrease) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building ‘cohort-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building ‘concept-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘demographics.rmd’ using rmarkdown --- finished re-building ‘demographics.rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘summarise.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 --- finished re-building ‘summarise.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘table-intersect.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 --- finished re-building ‘table-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: ‘concept-intersect.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘cohort-intersect.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-devel/PatientProfiles.Rcheck/vign_test/PatientProfiles/vignettes/cohort-intersect_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16730 bytes Input file size = 16832 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 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 IDAT size = 14956 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 = 5 IDAT size = 14956 Output IDAT size = 14956 bytes (1774 bytes decrease) Output file size = 15034 bytes (1798 bytes = 10.68% decrease) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building ‘cohort-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building ‘concept-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘demographics.rmd’ using rmarkdown --- finished re-building ‘demographics.rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘summarise.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 --- finished re-building ‘summarise.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘table-intersect.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 --- finished re-building ‘table-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: ‘concept-intersect.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building 'cohort-intersect.Rmd' using rmarkdown Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building 'cohort-intersect.Rmd' Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building 'concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building 'concept-intersect.Rmd' Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building 'demographics.rmd' using rmarkdown --- finished re-building 'demographics.rmd' Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building 'summarise.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 --- finished re-building 'summarise.Rmd' Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building 'table-intersect.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 --- finished re-building 'table-intersect.Rmd' Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: 'concept-intersect.Rmd' Error: Vignette re-building failed. Execution halted Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘cohort-intersect.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/PatientProfiles.Rcheck/vign_test/PatientProfiles/vignettes/cohort-intersect_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16730 bytes Input file size = 16832 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 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 IDAT size = 14956 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 = 5 IDAT size = 14956 Output IDAT size = 14956 bytes (1774 bytes decrease) Output file size = 15034 bytes (1798 bytes = 10.68% decrease) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building ‘cohort-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building ‘concept-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘demographics.rmd’ using rmarkdown --- finished re-building ‘demographics.rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘summarise.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 --- finished re-building ‘summarise.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘table-intersect.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 --- finished re-building ‘table-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: ‘concept-intersect.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-patched-linux-x86_64

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘cohort-intersect.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/PatientProfiles.Rcheck/vign_test/PatientProfiles/vignettes/cohort-intersect_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16730 bytes Input file size = 16832 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 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 IDAT size = 14956 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 = 5 IDAT size = 14956 Output IDAT size = 14956 bytes (1774 bytes decrease) Output file size = 15034 bytes (1798 bytes = 10.68% decrease) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- finished re-building ‘cohort-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘concept-intersect.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 161-195 [unnamed-chunk-11] (concept-intersect.Rmd) Error: processing vignette 'concept-intersect.Rmd' failed with diagnostics: ℹ In argument: `acetaminophen_minf_to_inf` Caused by error: ! Object `acetaminophen_minf_to_inf` not found. --- failed re-building ‘concept-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘demographics.rmd’ using rmarkdown --- finished re-building ‘demographics.rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘summarise.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 --- finished re-building ‘summarise.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. --- re-building ‘table-intersect.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 --- finished re-building ‘table-intersect.Rmd’ Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. SUMMARY: processing the following file failed: ‘concept-intersect.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-release-linux-x86_64