Listening on http://127.0.0.1:46001 Attaching package: 'shinydashboard' The following object is masked from 'package:graphics': box Loading required package: readr Loading required package: reshape2 Loading required package: lattice Loading required package: rawDiag Loading required package: rawrr Loading required package: ggnewscale Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-19 17:21:34.186678 | timeMax: 2024-03-19 17:21:34.187264 | timeDiff: 5184000.00058579 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 Loading required package: ggh4x Loading required package: ggplot2 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-01-19 16:21:34.187 | timeMax: 2024-03-19 16:21:34.187 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-19 17:35:29.773729 | timeMax: 2024-03-19 17:35:29.774311 | timeDiff: 5184000.0005815 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 576 using 'ggh4x' package ... nrow dataFiltered(): 260 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-19 16:35:29.77373 | timeMax: 2024-03-19 16:35:29.77431 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 576 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-19 16:35:29.774 | timeMax: 2024-03-19 16:35:29.774 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 576 using 'ggh4x' package ... nFacets: 2 nrow dataFiltered(): 520 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 198 using 'ggh4x' package ... NA nrow dataFiltered(): 198 using 'ggh4x' package ... NA input timeRange: 7776000 | timeMin: 2023-12-20 16:35:31.25047 | timeMax: 2024-03-19 16:35:29.774 | timeDiff: 7775998.52353001 nFacets: 2 nrow dataFiltered(): 806 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-20 18:36:07.747976 | timeMax: 2024-03-19 16:35:29.774 | timeDiff: 7772362.02602363 nrow dataFiltered(): 306 using 'ggh4x' package ... nFacets: 2 nrow dataFiltered(): 806 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-20 17:36:07.748 | timeMax: 2024-03-19 16:35:29.774 | timeDiff: 7772362.02600002 Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710865290327387000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 08:53:33.256346 | timeMax: 2024-03-20 08:53:33.256908 | timeDiff: 5184000.00056267 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 162 using 'ggh4x' package ... nrow dataFiltered(): 299 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-20 07:53:33.25635 | timeMax: 2024-03-20 07:53:33.25691 | timeDiff: 5184000.00055981 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-20 07:53:33.256 | timeMax: 2024-03-20 07:53:33.257 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_1/lkunz_20240318/20240319_002_autoQC03dia.raw Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710921209976155000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 08:54:26.540308 | timeMax: 2024-03-20 08:54:26.54087 | timeDiff: 5184000.00056267 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 162 using 'ggh4x' package ... nrow dataFiltered(): 299 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-20 07:54:26.54031 | timeMax: 2024-03-20 07:54:26.54087 | timeDiff: 5184000.00056005 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-20 07:54:26.54 | timeMax: 2024-03-20 07:54:26.541 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... nrow dataFiltered(): 299 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_1/lkunz_20240318/20240319_002_autoQC03dia.raw NA nrow dataFiltered(): 162 using 'ggh4x' package ... NA Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 10:05:32.163637 | timeMax: 2024-03-20 10:05:32.1642 | timeDiff: 5184000.00056291 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-01-20 09:05:32.164 | timeMax: 2024-03-20 09:05:32.164 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1808 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). NA p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_009_autoQC01.raw p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_009_autoQC01.raw p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_005_autoQC01.raw nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 180 using 'ggh4x' package ... nrow dataFiltered(): 1144 using 'ggh4x' package ... vals$rawrr: TRUE NA p3000/Proteomics/LUMOS_1/pgehrig_20240104_autoQC/20240318_039_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_1/pgehrig_20240104_autoQC/20240318_039_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/LUMOS_1/pgehrig_20240104_autoQC/20240318_039_autoQC03dda.raw Plotting chromatograms ... Read 22032 items p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_010_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_010_autoQC03dia.raw NA p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_010_autoQC03dia.raw NA p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_010_autoQC03dia.raw NA p34610/Proteomics/LUMOS_1/analytic_20240319/20240319_C34610_010_autoQC03dia.raw plotClick: nrow dataFiltered(): 180 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710925528893671000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 12:17:46.644915 | timeMax: 2024-03-20 12:17:46.646213 | timeDiff: 5184000.00129771 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710933460438972000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 13:32:18.204752 | timeMax: 2024-03-20 13:32:18.205318 | timeDiff: 5184000.00056648 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 736 using 'ggh4x' package ... Warning: Removed 11 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-01-20 12:32:18.205 | timeMax: 2024-03-20 12:32:18.205 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 736 using 'ggh4x' package ... Warning: Removed 11 rows containing missing values (`geom_point()`). NA p3000/Proteomics/EXPLORIS_1/antdit_20240219/20240219_004_autoQC01.raw NA p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_027_autoQC01.raw nFacets: 4 nrow dataFiltered(): 1808 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710937934883776000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 14:17:41.492976 | timeMax: 2024-03-20 14:17:41.493542 | timeDiff: 5184000.00056601 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710940658193433000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in dir.create(path) : cannot create dir 'logs-qc', reason 'Permission denied' fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-20 15:24:48.313316 | timeMax: 2024-03-20 15:24:48.313885 | timeDiff: 5184000.00056911 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 736 using 'ggh4x' package ... Warning: Removed 11 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-01-20 14:24:48.313 | timeMax: 2024-03-20 14:24:48.314 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 736 using 'ggh4x' package ... Warning: Removed 11 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 162 using 'ggh4x' package ... nrow dataFiltered(): 312 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_1/lkunz_20240320/20240320_001_autoQC03dda_newCol.raw Warning in file(con, "w") : cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1710921263240152000.json': No such file or directory Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp nrow dataFiltered(): 312 using 'ggh4x' package ...