Listening on http://127.0.0.1:35255 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 12:57:10.718305 | timeMax: 2024-01-31 12:57:10.718885 | timeDiff: 5184000.0005796 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 Loading required package: ggh4x Loading required package: ggplot2 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-02 11:57:10.718 | timeMax: 2024-01-31 11:57:10.719 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 13:34:05.599579 | timeMax: 2024-01-31 13:34:05.600162 | timeDiff: 5184000.00058317 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-02 12:34:05.6 | timeMax: 2024-01-31 12:34:05.6 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706704442133824000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 13:57:57.099254 | timeMax: 2024-01-31 13:57:57.09983 | timeDiff: 5184000.00057578 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-02 12:57:57.099 | timeMax: 2024-01-31 12:57:57.1 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). nFacets: 4 nrow dataFiltered(): 0 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 14:10:24.698464 | timeMax: 2024-01-31 14:10:24.699043 | timeDiff: 5184000.00057864 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-02 13:10:24.698 | timeMax: 2024-01-31 13:10:24.699 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 7 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). nFacets: 4 nrow dataFiltered(): 0 nFacets: 0 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 Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 0 nFacets: 0 nFacets: 1 nrow dataFiltered(): 0 nFacets: 1 nFacets: 1 nrow dataFiltered(): 0 nrow dataFiltered(): 338 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706706621351164000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 15:16:48.612875 | timeMax: 2024-01-31 15:16:48.613456 | timeDiff: 5184000.00058079 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-02 14:16:48.613 | timeMax: 2024-01-31 14:16:48.613 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). NA p3000/Proteomics/EXPLORIS_2/analytic_20240130/20240130_002_autoQC01.raw NA p33639/Proteomics/EXPLORIS_2/analytic_20231220/20231220_C33639_001_autoQC01.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706710605288518000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 16:02:05.381479 | timeMax: 2024-01-31 16:02:05.382082 | timeDiff: 5184000.00060248 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 221 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-02 15:02:05.38148 | timeMax: 2024-01-31 15:02:05.38208 | timeDiff: 5184000.0006001 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-02 15:02:05.381 | timeMax: 2024-01-31 15:02:05.382 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 234 using 'ggh4x' package ... p33969/Proteomics/EXPLORIS_2/analytic_20240122/20240122_C33969_033_autoQC03dda.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706713322134991000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 16:35:04.561676 | timeMax: 2024-01-31 16:35:04.562651 | timeDiff: 5184000.00097537 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-02 15:35:04.562 | timeMax: 2024-01-31 15:35:04.563 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). NA 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(): 234 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... NA vals$rawDiag: TRUE nrow dataFiltered(): 156 using 'ggh4x' package ... vals$rawDiag: FALSE vals$rawDiag: TRUE vals$rawDiag: TRUE vals$rawrr: TRUE vals$rawDiag: FALSE p3000/Proteomics/EXPLORIS_2/analytic_20240130/20240130_002_autoQC01.raw nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). nFacets: 4 nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 108 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 27 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 54 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 81 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). NA vals$rawDiag: TRUE nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 27 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). vals$rawrr: TRUE vals$rawrr: FALSE vals$rawDiag: FALSE nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). nFacets: 5 nrow dataFiltered(): 1600 using 'ggh4x' package ... Warning: Removed 17 rows containing missing values (`geom_point()`). Warning: Removed 13 rows containing missing values (`geom_line()`). nFacets: 6 nrow dataFiltered(): 1920 using 'ggh4x' package ... Warning: Removed 18 rows containing missing values (`geom_point()`). Warning: Removed 13 rows containing missing values (`geom_line()`). nFacets: 7 nrow dataFiltered(): 2240 using 'ggh4x' package ... Warning: Removed 21 rows containing missing values (`geom_point()`). Warning: Removed 16 rows containing missing values (`geom_line()`). nFacets: 8 nrow dataFiltered(): 2560 using 'ggh4x' package ... Warning: Removed 25 rows containing missing values (`geom_point()`). Warning: Removed 19 rows containing missing values (`geom_line()`). nFacets: 9 nrow dataFiltered(): 2880 using 'ggh4x' package ... Warning: Removed 25 rows containing missing values (`geom_point()`). Warning: Removed 19 rows containing missing values (`geom_line()`). nFacets: 10 nrow dataFiltered(): 3200 using 'ggh4x' package ... Warning: Removed 28 rows containing missing values (`geom_point()`). Warning: Removed 22 rows containing missing values (`geom_line()`). nFacets: 11 nrow dataFiltered(): 3520 using 'ggh4x' package ... Warning: Removed 38 rows containing missing values (`geom_point()`). Warning: Removed 26 rows containing missing values (`geom_line()`). nFacets: 11 nrow dataFiltered(): 3432 using 'ggh4x' package ... Warning: Removed 55 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_1/lkunz_20240125/20240125_003_autoQC03dda.raw NA p3000/Proteomics/EXPLORIS_1/lkunz_20240125/20240125_003_autoQC03dda.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706705873629771000.json': Permission denied 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 vals$rawDiag: TRUE fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 23:37:25.301571 | timeMax: 2024-01-31 23:37:25.302173 | timeDiff: 5184000.00060129 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE 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 input timeRange: 7776000 | timeMin: 2023-12-02 22:37:25.302 | timeMax: 2024-01-31 22:37:25.302 | timeDiff: 5184000 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 234 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 792 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706740642191526000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-02 23:39:08.169692 | timeMax: 2024-01-31 23:39:08.170347 | timeDiff: 5184000.00065494 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 234 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-02 22:39:08.16969 | timeMax: 2024-01-31 22:39:08.17035 | timeDiff: 5184000.00066018 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 234 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-02 22:39:08.17 | timeMax: 2024-01-31 22:39:08.17 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 234 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 792 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp NA plotClick: fn has changed to /srv/www/htdocs//NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 08:23:50.842983 | timeMax: 2024-02-01 08:23:50.84358 | timeDiff: 5184000.00059724 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-03 07:23:50.843 | timeMax: 2024-02-01 07:23:50.844 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). nFacets: 4 nrow dataFiltered(): 1216 using 'ggh4x' package ... Warning: Removed 35 rows containing missing values (`geom_point()`). Warning: Removed 6 rows containing missing values (`geom_line()`). 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(): 0 nrow dataFiltered(): 338 using 'ggh4x' package ... NA p34105/Proteomics/QEXACTIVE_1/analytic_20240130/20240130_C34105_005_autoQC03dda.raw autoQC01 module APEX wide nrow: 259105 autoQC01 module APEX long nrow: 912 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 66 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 10:39:22.325742 | timeMax: 2024-02-01 10:39:22.326324 | timeDiff: 5184000.0005815 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:39:22.326 | timeMax: 2024-02-01 09:39:22.326 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 10:48:29.978646 | timeMax: 2024-02-01 10:48:29.979225 | timeDiff: 5184000.00057936 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:48:29.979 | timeMax: 2024-02-01 09:48:29.979 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). 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) Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706780906926359000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706780359183617000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706715300422174000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 11:36:00.193975 | timeMax: 2024-02-01 11:36:00.194607 | timeDiff: 5184000.00063157 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 10:36:00.194 | timeMax: 2024-02-01 10:36:00.195 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706783757064121000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 11:57:37.838813 | timeMax: 2024-02-01 11:57:37.840386 | timeDiff: 5184000.00157332 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 10:57:37.839 | timeMax: 2024-02-01 10:57:37.84 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_001_autoQC01.raw p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_001_autoQC01.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_001_autoQC01.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_001_autoQC01.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706772227771061000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706785053303590000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 13:43:13.785621 | timeMax: 2024-02-01 13:43:13.78629 | timeDiff: 5184000.000669 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 12:43:13.786 | timeMax: 2024-02-01 12:43:13.786 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 234 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... p33969/Proteomics/EXPLORIS_2/analytic_20240122/20240122_C33969_033_autoQC03dda.raw NA p33969/Proteomics/EXPLORIS_2/analytic_20240122/20240122_C33969_033_autoQC03dda.raw NA p33969/Proteomics/EXPLORIS_2/analytic_20240122/20240122_C33969_033_autoQC03dda.raw p34034/Proteomics/EXPLORIS_2/shigup_20240126/20240126_012_autoQC03dia.raw NA plotClick: fn has changed to /srv/www/htdocs//NA vals$rawDiag: TRUE Warning in renderUI() : raw file /srv/www/htdocs//NA does not exist. nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 13:58:45.697694 | timeMax: 2024-02-01 13:58:45.698298 | timeDiff: 5184000.00060368 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 12:58:45.698 | timeMax: 2024-02-01 12:58:45.698 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 234 using 'ggh4x' package ... nrow dataFiltered(): 169 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_004_autoQC03dda.raw nrow dataFiltered(): 169 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_004_autoQC03dda.raw NA NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706792322681985000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706791390220475000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 16:06:58.189881 | timeMax: 2024-02-01 16:06:58.190799 | timeDiff: 5184000.00091791 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-03 15:06:58.18988 | timeMax: 2024-02-01 15:06:58.1908 | timeDiff: 5184000.00092006 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 252 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-03 15:06:58.19 | timeMax: 2024-02-01 15:06:58.191 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 252 using 'ggh4x' package ... NA NA nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 252 using 'ggh4x' package ... p34034/Proteomics/EXPLORIS_2/shigup_20240126/20240126_012_autoQC03dia.raw NA nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706800014544844000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 16:53:01.483237 | timeMax: 2024-02-01 16:53:01.483849 | timeDiff: 5184000.00061202 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 15:53:01.483 | timeMax: 2024-02-01 15:53:01.484 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... NA nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... NA nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 252 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 17:09:43.654351 | timeMax: 2024-02-01 17:09:43.655485 | timeDiff: 5184000.00113368 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 252 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-03 16:09:43.65435 | timeMax: 2024-02-01 16:09:43.65549 | timeDiff: 5184000.00113988 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 252 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-03 16:09:43.654 | timeMax: 2024-02-01 16:09:43.655 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 252 using 'ggh4x' package ... NA input timeRange: 7776000 | timeMin: 2024-01-26 16:09:46.595 | timeMax: 2024-02-01 16:09:43.655 | timeDiff: 518397.059999943 nFacets: 1 nrow dataFiltered(): 26 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 36 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706803780196930000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706802778408742000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 13:59:01.228113 | timeMax: 2024-02-02 13:59:01.228774 | timeDiff: 5184000.00066066 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-04 12:59:01.228 | timeMax: 2024-02-02 12:59:01.229 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 28 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706878738135691000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 16:35:10.722976 | timeMax: 2024-02-02 16:35:10.723548 | timeDiff: 5184000.00057125 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) vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-04 15:35:10.72298 | timeMax: 2024-02-02 15:35:10.72355 | timeDiff: 5184000.00057006 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706888107691520000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 09:24:57.585942 | timeMax: 2024-02-05 09:24:57.586509 | timeDiff: 5184000.0005672 nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-07 08:24:57.58594 | timeMax: 2024-02-05 08:24:57.58651 | timeDiff: 5184000.00057006 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 09:25:11.585459 | timeMax: 2024-02-05 09:25:11.586036 | timeDiff: 5184000.00057745 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 143 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 08:25:11.58546 | timeMax: 2024-02-05 08:25:11.58604 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 08:25:11.585 | timeMax: 2024-02-05 08:25:11.586 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 234 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707121508559850000.json': Permission denied 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 nFacets: 0 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 828 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 08:24:57.586 | timeMax: 2024-02-05 08:24:57.587 | timeDiff: 5184000.00099993 nFacets: 0 nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... NA p29033/Proteomics/TIMSTOF_1/radhika_20240201_TKOChow_Proteome_DIA/zip/20240201_061_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p29033/Proteomics/TIMSTOF_1/radhika_20240201_TKOChow_Proteome_DIA/zip/20240201_061_autoQC03dia.d.zip Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707121494559400000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 10:11:55.121086 | timeMax: 2024-02-05 10:11:55.121662 | timeDiff: 5184000.00057578 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-07 09:11:55.121 | timeMax: 2024-02-05 09:11:55.122 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1216 using 'ggh4x' package ... Warning: Removed 27 rows containing missing values (`geom_point()`). Warning: Removed 2 rows containing missing values (`geom_line()`). 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(): 126 using 'ggh4x' package ... nrow dataFiltered(): 260 using 'ggh4x' package ... NA nrow dataFiltered(): 260 using 'ggh4x' package ... nrow dataFiltered(): 260 using 'ggh4x' package ... nrow dataFiltered(): 260 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707124312089397000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 10:39:38.099249 | timeMax: 2024-02-05 10:39:38.099946 | timeDiff: 5184000.0006969 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE nFacets: 0 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 828 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 09:39:38.09925 | timeMax: 2024-02-05 09:39:38.09995 | timeDiff: 5184000.00069976 nFacets: 0 nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 09:39:38.099 | timeMax: 2024-02-05 09:39:38.1 | timeDiff: 5184000.00099993 nFacets: 0 nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... NA p29033/Proteomics/TIMSTOF_1/radhika_20240201_TKOChow_Proteome_DIA/zip/20240201_061_autoQC03dia.d.zip NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706740744987577000.json': Permission denied 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 vals$rawrr: TRUE vals$rawrr: FALSE nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 11:28:59.068552 | timeMax: 2024-02-05 11:28:59.069116 | timeDiff: 5184000.00056386 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 143 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 10:28:59.06855 | timeMax: 2024-02-05 10:28:59.06912 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 10:28:59.069 | timeMax: 2024-02-05 10:28:59.069 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... NA nrow dataFiltered(): 143 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_005_autoQC03dda.raw NA input timeRange: 7776000 | timeMin: 2024-02-02 10:29:01.37 | timeMax: 2024-02-05 10:28:59.069 | timeDiff: 259197.69900012 nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 18 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp input timeRange: 7776000 | timeMin: 2024-01-30 10:29:20.76 | timeMax: 2024-02-05 10:28:59.069 | timeDiff: 518378.309000015 nFacets: 1 nFacets: 1 nrow dataFiltered(): 54 using 'ggh4x' package ... nrow dataFiltered(): 26 using 'ggh4x' package ... nrow dataFiltered(): 26 using 'ggh4x' package ... nrow dataFiltered(): 54 using 'ggh4x' package ... NA nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 0 nrow dataFiltered(): 0 nrow dataFiltered(): 39 using 'ggh4x' package ... nrow dataFiltered(): 39 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-01-21 10:29:25.712 | timeMax: 2024-02-05 10:28:59.069 | timeDiff: 1295973.35700011 nFacets: 1 nrow dataFiltered(): 78 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 18 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nrow dataFiltered(): 78 using 'ggh4x' package ... nrow dataFiltered(): 78 using 'ggh4x' package ... nrow dataFiltered(): 18 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707128936036660000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 15:09:53.476644 | timeMax: 2024-02-05 15:09:53.477322 | timeDiff: 5184000.00067782 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 143 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 14:09:53.47664 | timeMax: 2024-02-05 14:09:53.47732 | timeDiff: 5184000.00067997 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-07 14:09:53.477 | timeMax: 2024-02-05 14:09:53.477 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 414 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707142190335904000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 15:47:54.301324 | timeMax: 2024-02-05 15:47:54.30191 | timeDiff: 5184000.00058579 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-07 14:47:54.301 | timeMax: 2024-02-05 14:47:54.302 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_001_autoQC01.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_001_autoQC01.raw NA plotClick: fn has changed to /srv/www/htdocs//NA 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(): 270 using 'ggh4x' package ... nrow dataFiltered(): 143 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_005_autoQC03dda.raw NA p34114/Proteomics/EXPLORIS_2/analytic_20240202/20240202_C34114_013_autoQC03dia.raw nrow dataFiltered(): 143 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_005_autoQC03dda.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707144471310377000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 17:19:18.589154 | timeMax: 2024-02-05 17:19:18.590019 | timeDiff: 5184000.00086498 nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-07 16:19:18.58915 | timeMax: 2024-02-05 16:19:18.59002 | timeDiff: 5184000.00086999 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707149955227288000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 10:17:55.290916 | timeMax: 2024-02-06 10:17:55.291484 | timeDiff: 5184000.00056791 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 288 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 09:17:55.29092 | timeMax: 2024-02-06 09:17:55.29148 | timeDiff: 5184000.00056005 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 09:17:55.291 | timeMax: 2024-02-06 09:17:55.291 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 988 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 414 using 'ggh4x' package ... NA 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 10:38:37.234267 | timeMax: 2024-02-06 10:38:37.234855 | timeDiff: 5184000.0005877 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 09:38:37.234 | timeMax: 2024-02-06 09:38:37.235 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA p33709/Proteomics/EXPLORIS_2/analytic_20231215/20231215_C33709_017_autoQC01.raw NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 10:51:24.817622 | timeMax: 2024-02-06 10:51:24.818201 | timeDiff: 5184000.0005796 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 288 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 09:51:24.81762 | timeMax: 2024-02-06 09:51:24.8182 | timeDiff: 5184000.00057983 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 09:51:24.818 | timeMax: 2024-02-06 09:51:24.818 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... nrow dataFiltered(): 260 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707213081822925000.json': Permission denied 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 input timeRange: 7776000 | timeMin: 2023-12-17 09:38:38.298 | timeMax: 2024-02-06 09:38:37.235 | timeDiff: 4406398.9369998 nFacets: 4 nrow dataFiltered(): 768 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-11-30 09:54:15.633 | timeMax: 2024-02-06 09:38:37.235 | timeDiff: 5874261.602 nFacets: 4 nrow dataFiltered(): 1408 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 11:29:17.519854 | timeMax: 2024-02-06 11:29:17.520495 | timeDiff: 5184000.00064087 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 288 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 10:29:17.51985 | timeMax: 2024-02-06 10:29:17.52049 | timeDiff: 5184000.00063992 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 10:29:17.52 | timeMax: 2024-02-06 10:29:17.52 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_003_autoQC03dda.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240201/20240201_005_autoQC03dda.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_004_autoQC03dia.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_004_autoQC03dia.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_004_autoQC03dia.raw NA nrow dataFiltered(): 288 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_004_autoQC03dia.raw NA nrow dataFiltered(): 288 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 11:32:43.272769 | timeMax: 2024-02-06 11:32:43.273485 | timeDiff: 5184000.00071621 nFacets: 4 nrow dataFiltered(): 288 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707215560196587000.json': Permission denied 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(): 288 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_004_autoQC03dia.raw nrow dataFiltered(): 156 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707215354458236000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707212314133582000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707125975086657000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 14:18:35.863727 | timeMax: 2024-02-06 14:18:35.864314 | timeDiff: 5184000.00058675 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 306 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 13:18:35.86373 | timeMax: 2024-02-06 13:18:35.86431 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 13:18:35.864 | timeMax: 2024-02-06 13:18:35.864 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... NA nrow dataFiltered(): 306 using 'ggh4x' package ... nrow dataFiltered(): 306 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240206_001_autoQC03dia.raw NA NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_003_autoQC03dda.raw p34114/Proteomics/EXPLORIS_2/analytic_20240202/20240202_C34114_013_autoQC03dia.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240206_001_autoQC03dia.raw p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240205_004_autoQC03dia.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707225512812991000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 15:58:47.050771 | timeMax: 2024-02-06 15:58:47.051347 | timeDiff: 5184000.00057602 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 306 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 14:58:47.05077 | timeMax: 2024-02-06 14:58:47.05135 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 14:58:47.051 | timeMax: 2024-02-06 14:58:47.051 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240206_001_autoQC03dia.raw NA nrow dataFiltered(): 306 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240206_001_autoQC03dia.raw NA NA 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 16:09:15.735192 | timeMax: 2024-02-06 16:09:15.735773 | timeDiff: 5184000.00058103 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 288 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 15:09:15.73519 | timeMax: 2024-02-06 15:09:15.73577 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 15:09:15.735 | timeMax: 2024-02-06 15:09:15.736 | timeDiff: 5184000.00100017 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 288 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707231523697275000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp nrow dataFiltered(): 288 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/analytic_20240205/20240206_001_autoQC03dia.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707232152288073000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707211072231837000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 16:41:54.631404 | timeMax: 2024-02-06 16:41:54.632119 | timeDiff: 5184000.00071454 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 306 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 15:41:54.6314 | timeMax: 2024-02-06 15:41:54.63212 | timeDiff: 5184000.00072026 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-08 15:41:54.631 | timeMax: 2024-02-06 15:41:54.632 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 306 using 'ggh4x' package ... NA nrow dataFiltered(): 306 using 'ggh4x' package ... NA nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). p34122/Proteomics/EXPLORIS_2/analytic_20240206/20240206_C34122_001_autoQC01.raw p3000/Proteomics/EXPLORIS_2/analytic_20240131/20240131_002_autoQC01.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707234111547553000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 08:52:23.103208 | timeMax: 2024-02-07 08:52:23.103783 | timeDiff: 5184000.00057507 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 07:52:23.10321 | timeMax: 2024-02-07 07:52:23.10378 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 07:52:23.103 | timeMax: 2024-02-07 07:52:23.104 | timeDiff: 5184000.00100017 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nrow dataFiltered(): 324 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707292340102925000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 15:08:12.973865 | timeMax: 2024-02-07 15:08:12.974543 | timeDiff: 5184000.0006783 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 14:08:12.97386 | timeMax: 2024-02-07 14:08:12.97454 | timeDiff: 5184000.00067997 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 14:08:12.974 | timeMax: 2024-02-07 14:08:12.975 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 247 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_1/lkunz_20240125/20240125_004_autoQC03dia.raw NA p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw NA p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw NA vals$rawrr: TRUE p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw Plotting chromatograms ... Read 22032 items vals$rawrr: FALSE vals$rawDiag: TRUE plotChargeState reading index for 20240202_C34118_066_autoQC03dda.raw... plotClick: NA plotCycleLoad `geom_smooth()` using formula = 'y ~ x' plotCycleTime plotLockMassCorrection plotMassDistribution plotPrecursorHeatmap plotTicBasepeak p3000/Proteomics/EXPLORIS_1/spfammatter_20240103/20240103_003_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/spfammatter_20240103/20240103_003_autoQC03dda.raw plotChargeState reading index for 20240103_003_autoQC03dda.raw... NA plotTicBasepeak fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 15:14:03.004952 | timeMax: 2024-02-07 15:14:03.005613 | timeDiff: 5184000.00066113 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 14:14:03.00495 | timeMax: 2024-02-07 14:14:03.00561 | timeDiff: 5184000.00065994 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 14:14:03.005 | timeMax: 2024-02-07 14:14:03.006 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 247 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... vals$rawDiag: TRUE p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw plotChargeState Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-rawDiag-autoQC03-plot 1: runApp reading index for 20240202_C34118_066_autoQC03dda.raw... NA plotTicBasepeak Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707315239019599000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 21:16:22.729961 | timeMax: 2024-02-07 21:16:22.730666 | timeDiff: 5184000.00070477 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-09 20:16:22.73 | timeMax: 2024-02-07 20:16:22.731 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 810 using 'ggh4x' package ... NA NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-10 08:21:50.413682 | timeMax: 2024-02-08 08:21:50.414751 | timeDiff: 5184000.00106907 nFacets: 4 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707376904888599000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-10 08:38:38.835889 | timeMax: 2024-02-08 08:38:38.83649 | timeDiff: 5184000.00060105 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-10 07:38:38.83589 | timeMax: 2024-02-08 07:38:38.83649 | timeDiff: 5184000.0006001 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-10 07:38:38.836 | timeMax: 2024-02-08 07:38:38.836 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 208 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 810 using 'ggh4x' package ... NA p3000/Proteomics/TIMSTOF_1/cfortes_20240207/zip/20240207_004_autoQC03dda_Waste_1ulCentrifugeLoad.d.zip plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/TIMSTOF_1/cfortes_20240207/zip/20240207_004_autoQC03dda_Waste_1ulCentrifugeLoad.d.zip plotClick: p3000/Proteomics/TIMSTOF_1/cfortes_20240207/zip/20240207_005_autoQC03dda_Waste_2min100ulWash.d.zip Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707336979714587000.json': Permission denied 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 plotClick: p3000/Proteomics/TIMSTOF_1/cfortes_20240207/zip/20240207_004_autoQC03dda_Waste_1ulCentrifugeLoad.d.zip NA plotClick: fn has changed to /srv/www/htdocs//p34066/Proteomics/TIMSTOF_1/spfammatter_20240205/zip/20240205_002_autoQC03dia.d.zip p34066/Proteomics/TIMSTOF_1/spfammatter_20240205/zip/20240205_002_autoQC03dia.d.zip NA p34066/Proteomics/TIMSTOF_1/spfammatter_20240205/zip/20240205_002_autoQC03dia.d.zip plotClick: plotClick: NA plotClick: p3000/Proteomics/TIMSTOF_1/cfortes_20240207/zip/20240207_004_autoQC03dda_Waste_1ulCentrifugeLoad.d.zip 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: 2023-12-10 09:59:08.192483 | timeMax: 2024-02-08 09:59:08.194302 | timeDiff: 5184000.00181913 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1360 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-10 08:59:08.192 | timeMax: 2024-02-08 08:59:08.194 | timeDiff: 5184000.00200009 nFacets: 4 nrow dataFiltered(): 1360 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). NA vals$rawrr: TRUE p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_010_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_010_autoQC01.raw Reading raw file: /srv/www/htdocs//p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_010_autoQC01.raw Plotting chromatograms ... Read 22032 items NA nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 936 using 'ggh4x' package ... NA p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_002_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_002_autoQC03dda.raw NA NA p34068/Proteomics/FUSION_2/aeberle_20240202/20240202_008_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p34068/Proteomics/FUSION_2/aeberle_20240202/20240202_008_autoQC03dia.raw nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 936 using 'ggh4x' package ... nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 936 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707382741826759000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-10 12:29:11.902894 | timeMax: 2024-02-08 12:29:11.903469 | timeDiff: 5184000.00057411 nFacets: 4 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 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 126 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-10 11:29:11.90289 | timeMax: 2024-02-08 11:29:11.90347 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-10 11:29:11.903 | timeMax: 2024-02-08 11:29:11.903 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_066_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240202/20240202_C34118_002_autoQC03dda.raw NA NA nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707391748896583000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-10 17:34:44.444757 | timeMax: 2024-02-08 17:34:44.445332 | timeDiff: 5184000.0005753 nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-10 16:34:44.44476 | timeMax: 2024-02-08 16:34:44.44533 | timeDiff: 5184000.00057006 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707410081388884000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707314889734079000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-11 11:51:06.918619 | timeMax: 2024-02-09 11:51:06.919188 | timeDiff: 5184000.00056958 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 input timeRange: 7776000 | timeMin: 2023-12-11 10:51:06.919 | timeMax: 2024-02-09 10:51:06.919 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 0 nFacets: 4 nrow dataFiltered(): 0 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(): 828 using 'ggh4x' package ... nrow dataFiltered(): 208 using 'ggh4x' package ... NA NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707377915385905000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-11 12:22:26.66128 | timeMax: 2024-02-09 12:22:26.661858 | timeDiff: 5184000.00057793 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1168 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-11 11:22:26.661 | timeMax: 2024-02-09 11:22:26.662 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1168 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 312 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... NA nrow dataFiltered(): 312 using 'ggh4x' package ... nrow dataFiltered(): 126 using 'ggh4x' package ... nrow dataFiltered(): 312 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 1168 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707477743603647000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707475863864401000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-15 06:51:32.944529 | timeMax: 2024-02-13 06:51:32.945097 | timeDiff: 5184000.00056815 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1008 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-15 05:51:32.945 | timeMax: 2024-02-13 05:51:32.945 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1008 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 0 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(): 90 using 'ggh4x' package ... nrow dataFiltered(): 52 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707803489868974000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-15 08:17:55.464533 | timeMax: 2024-02-13 08:17:55.465996 | timeDiff: 5184000.00146341 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 90 using 'ggh4x' package ... nrow dataFiltered(): 52 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-15 07:17:55.46453 | timeMax: 2024-02-13 07:17:55.466 | timeDiff: 5184000.00147009 nFacets: 1 nrow dataFiltered(): 52 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 90 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-15 07:17:55.465 | timeMax: 2024-02-13 07:17:55.466 | timeDiff: 5184000.00100017 nFacets: 1 nrow dataFiltered(): 52 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 90 using 'ggh4x' package ... NA NA p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A4_20240212_013_autoQC03dia_60spd_1_2-13-2024_00-00-43_32.d.zip plotClick: fn has changed to /srv/www/htdocs//p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A4_20240212_013_autoQC03dia_60spd_1_2-13-2024_00-00-43_32.d.zip NA nrow dataFiltered(): 90 using 'ggh4x' package ... plotClick: fn has changed to /srv/www/htdocs//NA p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_003_autoQC03dda_25ng.d.zip p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_002_autoQC03dda_25ng.d.zip fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-15 08:22:37.61924 | timeMax: 2024-02-13 08:22:37.619893 | timeDiff: 5184000.00065255 nFacets: 4 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707808951216441000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-15 08:46:30.380155 | timeMax: 2024-02-13 08:46:30.381238 | timeDiff: 5184000.0010829 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 input timeRange: 7776000 | timeMin: 2023-12-15 07:46:30.38 | timeMax: 2024-02-13 07:46:30.381 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 0 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707808668071485000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp NA nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 90 using 'ggh4x' package ... nrow dataFiltered(): 52 using 'ggh4x' package ... NA nrow dataFiltered(): 90 using 'ggh4x' package ... p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_005_autoQC03dia_25ng.d.zip p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_006_autoQC03dia_25ng.d.zip nrow dataFiltered(): 90 using 'ggh4x' package ... NA p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_006_autoQC03dia_25ng.d.zip p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_005_autoQC03dia_25ng.d.zip p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_006_autoQC03dia_25ng.d.zip p3000/Proteomics/TIMSTOFFLEX_1/antdit_20240108/zip/20240108_005_autoQC03dia_25ng.d.zip NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707810382132524000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-16 11:02:34.976835 | timeMax: 2024-02-14 11:02:34.977408 | timeDiff: 5184000.00057364 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 928 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-16 10:02:34.977 | timeMax: 2024-02-14 10:02:34.977 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 928 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1424 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). NA p34203/Proteomics/LUMOS_2/analytic_20240212/20240212_C34203_006_autoQC01.raw p34203/Proteomics/LUMOS_2/analytic_20240212/20240212_C34203_011_autoQC01.raw NA p34204/Proteomics/LUMOS_2/analytic_20240214/20240214_C34204_001_autoQC01.raw NA 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-17 10:38:46.643213 | timeMax: 2024-02-15 10:38:46.643786 | timeDiff: 5184000.00057364 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 928 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-17 09:38:46.643 | timeMax: 2024-02-15 09:38:46.644 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 928 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 44 rows containing missing values (`geom_point()`). NA autoQC01 module APEX wide nrow: 260513 autoQC01 module APEX long nrow: 888 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 54 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 nrow dataFiltered(): 338 using 'ggh4x' package ... p34231/Proteomics/QEXACTIVE_1/analytic_20240214/20240214_C34231_008_autoQC03dda.raw nFacets: 4 nrow dataFiltered(): 988 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... NA p3000/Proteomics/FUSION_2/analytic_20240214/20240214_003_autoQC03dda.raw autoQC01 module APEX long nrow: 936 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 26 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/analytic_20240214/20240214_001_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_006_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_016_autoQC01.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707989923593428000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-17 12:04:21.616761 | timeMax: 2024-02-15 12:04:21.617545 | timeDiff: 5184000.0007844 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-17 11:04:21.61676 | timeMax: 2024-02-15 11:04:21.61755 | timeDiff: 5184000.00079012 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-17 11:04:21.617 | timeMax: 2024-02-15 11:04:21.618 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nrow dataFiltered(): 342 using 'ggh4x' package ... NA nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... NA p27114/Proteomics/EXPLORIS_1/antdit_20220106/20220106_020_autoQC4L.raw p3000/Proteomics/EXPLORIS_1/antdit_20220331/20220331_003_autoQC4L.raw nrow dataFiltered(): 144 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707995057373048000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707904951927840000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-17 17:24:44.351602 | timeMax: 2024-02-15 17:24:44.352221 | timeDiff: 5184000.00061989 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-17 16:24:44.3516 | timeMax: 2024-02-15 16:24:44.35222 | timeDiff: 5184000.00061989 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-17 16:24:44.352 | timeMax: 2024-02-15 16:24:44.352 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 846 using 'ggh4x' package ... plotClick: fn has changed to /srv/www/htdocs//NA NA p34113/Proteomics/TIMSTOF_1/egaehw_20240209_/zip/20240209_007_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p34113/Proteomics/TIMSTOF_1/egaehw_20240209_/zip/20240209_007_autoQC03dia.d.zip plotClick: NA p33813/Proteomics/TIMSTOF_1/analytic_20240215_/zip/20240215_005_autoQC03dda.d.zip plotClick: fn has changed to /srv/www/htdocs//p33813/Proteomics/TIMSTOF_1/analytic_20240215_/zip/20240215_005_autoQC03dda.d.zip plotClick: p34113/Proteomics/TIMSTOF_1/egaehw_20240209_/zip/20240209_007_autoQC03dia.d.zip NA plotClick: NA plotClick: p33813/Proteomics/TIMSTOF_1/analytic_20240215_/zip/20240215_005_autoQC03dda.d.zip input timeRange: 7776000 | timeMin: 2023-11-27 16:24:46.373 | timeMax: 2024-02-15 16:24:44.352 | timeDiff: 6911997.97900009 nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 1008 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708014281288542000.json': Permission denied 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 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: 2023-12-18 08:32:27.136135 | timeMax: 2024-02-16 08:32:27.136816 | timeDiff: 5184000.00068092 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-18 07:32:27.13613 | timeMax: 2024-02-16 07:32:27.13682 | timeDiff: 5184000.00069022 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-18 07:32:27.136 | timeMax: 2024-02-16 07:32:27.137 | timeDiff: 5184000.00100017 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 846 using 'ggh4x' package ... NA nFacets: 1 nrow dataFiltered(): 52 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 90 using 'ggh4x' package ... plotClick: fn has changed to /srv/www/htdocs//p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A4_20240212_013_autoQC03dia_60spd_1_2-13-2024_00-00-43_32.d.zip p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A4_20240212_013_autoQC03dia_60spd_1_2-13-2024_00-00-43_32.d.zip NA plotClick: fn has changed to /srv/www/htdocs//NA plotClick: fn has changed to /srv/www/htdocs//p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A4_20240212_013_autoQC03dia_60spd_1_2-13-2024_00-00-43_32.d.zip p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A4_20240212_013_autoQC03dia_60spd_1_2-13-2024_00-00-43_32.d.zip NA nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 846 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708068744059380000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 09:00:12.973629 | timeMax: 2024-02-16 09:00:12.974219 | timeDiff: 5184000.00059032 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 976 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-18 08:00:12.974 | timeMax: 2024-02-16 08:00:12.974 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 976 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 12 rows containing missing values (`geom_point()`). autoQC01 module APEX wide nrow: 260667 autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 28 rows containing missing values (`geom_point()`). NA p34284/Proteomics/FUSION_2/adelizliang_20240215/20240215_004_autoQC01.raw NA nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 1092 using 'ggh4x' package ... NA p34284/Proteomics/FUSION_2/adelizliang_20240215/20240215_005_autoQC03dda.raw NA p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_019_autoQC03dia.raw NA nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 0 Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp autoQC01 module APEX long nrow: 0 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 autoQC01 module APEX long nrow: 924 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 56 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). p34284/Proteomics/QEXACTIVE_1/analytic_20240215/20240215_C34284_001_autoQC01.raw nFacets: 1 Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nFacets: 1 nrow dataFiltered(): 0 nrow dataFiltered(): 338 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708070409901620000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 09:41:24.355255 | timeMax: 2024-02-16 09:41:24.356542 | timeDiff: 5184000.00128651 nFacets: 4 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 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 846 using 'ggh4x' package ... nrow dataFiltered(): 39 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-18 08:41:24.35526 | timeMax: 2024-02-16 08:41:24.35654 | timeDiff: 5184000.00128007 nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 846 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-18 08:41:24.355 | timeMax: 2024-02-16 08:41:24.357 | timeDiff: 5184000.00200009 nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 846 using 'ggh4x' package ... NA p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip NA p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 10:51:58.49212 | timeMax: 2024-02-16 10:51:58.492731 | timeDiff: 5184000.00061035 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 960 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-18 09:51:58.492 | timeMax: 2024-02-16 09:51:58.493 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 960 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 52 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 90 using 'ggh4x' package ... NA nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 846 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708077114422782000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 12:56:27.899741 | timeMax: 2024-02-16 12:56:27.900692 | timeDiff: 5184000.00095105 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-18 11:56:27.9 | timeMax: 2024-02-16 11:56:27.901 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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) Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708084582521790000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 12:59:29.391252 | timeMax: 2024-02-16 12:59:29.392414 | timeDiff: 5184000.00116205 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-18 11:59:29.391 | timeMax: 2024-02-16 11:59:29.392 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 338 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 0 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708084765656700000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 14:54:50.0107 | timeMax: 2024-02-16 14:54:50.011737 | timeDiff: 5184000.00103688 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) vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-18 13:54:50.0107 | timeMax: 2024-02-16 13:54:50.01174 | timeDiff: 5184000.00103998 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708091685429114000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-18 15:27:43.068781 | timeMax: 2024-02-16 15:27:43.070335 | timeDiff: 5184000.00155401 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-18 14:27:43.06878 | timeMax: 2024-02-16 14:27:43.07034 | timeDiff: 5184000.00156021 nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-18 14:27:43.069 | timeMax: 2024-02-16 14:27:43.07 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708093655720857000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-20 18:42:06.53098 | timeMax: 2024-02-18 18:42:06.531556 | timeDiff: 5184000.00057602 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-20 17:42:06.53098 | timeMax: 2024-02-18 17:42:06.53156 | timeDiff: 5184000.00058007 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-20 17:42:06.531 | timeMax: 2024-02-18 17:42:06.532 | timeDiff: 5184000.00100017 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708072878933770000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-21 09:04:54.188999 | timeMax: 2024-02-19 09:04:54.18957 | timeDiff: 5184000.00057125 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-21 08:04:54.189 | timeMax: 2024-02-19 08:04:54.19 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 816 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 273 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708329891095827000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-21 09:21:53.5397 | timeMax: 2024-02-19 09:21:53.540273 | timeDiff: 5184000.00057244 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-21 08:21:53.5397 | timeMax: 2024-02-19 08:21:53.54027 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-21 08:21:53.54 | timeMax: 2024-02-19 08:21:53.54 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 39 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708278123435436000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-21 15:33:03.182949 | timeMax: 2024-02-19 15:33:03.183522 | timeDiff: 5184000.00057292 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-21 14:33:03.183 | timeMax: 2024-02-19 14:33:03.184 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 273 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 273 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_1/antdit_20240219/20240219_002_autoQC03dda.raw NA nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 273 using 'ggh4x' package ... nrow dataFiltered(): 273 using 'ggh4x' package ... nrow dataFiltered(): 273 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_1/lkunz_20221104_autoQC/20221104_08_autoQC4L.raw NA NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708353180104256000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-21 21:08:04.652892 | timeMax: 2024-02-19 21:08:04.653479 | timeDiff: 5184000.00058675 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 864 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-21 20:08:04.653 | timeMax: 2024-02-19 20:08:04.653 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 864 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708373281597749000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-21 21:15:17.608031 | timeMax: 2024-02-19 21:15:17.608639 | timeDiff: 5184000.00060749 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 864 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-21 20:15:17.608 | timeMax: 2024-02-19 20:15:17.609 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 864 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA p33640/Proteomics/EXPLORIS_2/analytic_20240117/20240117_C33640_001_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-11-25 20:15:18.635 | timeMax: 2024-02-19 20:15:17.609 | timeDiff: 7430398.97399998 nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 12 rows containing missing values (`geom_point()`). Warning: Removed 2 rows containing missing values (`geom_line()`). NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708373714615239000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-22 09:15:03.034399 | timeMax: 2024-02-20 09:15:03.034987 | timeDiff: 5184000.00058794 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-22 08:15:03.034 | timeMax: 2024-02-20 08:15:03.035 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 44 rows containing missing values (`geom_point()`). autoQC01 module APEX wide nrow: 260920 autoQC01 module APEX long nrow: 924 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 54 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). p33950/Proteomics/QEXACTIVE_1/analytic_20240216/20240216_C33950_019_autoQC01.raw NA p33950/Proteomics/QEXACTIVE_1/analytic_20240216/20240216_C33950_001_autoQC01_rep.raw p34189/Proteomics/QEXACTIVE_1/analytic_20240219/20240219_C34189_010_autoQC01.raw NA 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(): 0 nrow dataFiltered(): 351 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... autoQC01 module APEX long nrow: 636 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 20 rows containing missing values (`geom_point()`). NA 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-22 10:14:27.061913 | timeMax: 2024-02-20 10:14:27.062508 | timeDiff: 5184000.00059509 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-22 09:14:27.06191 | timeMax: 2024-02-20 09:14:27.06251 | timeDiff: 5184000.0006001 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-22 09:14:27.062 | timeMax: 2024-02-20 09:14:27.063 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 792 using 'ggh4x' package ... NA NA plotClick: fn has changed to /srv/www/htdocs//p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_134_autoQC03dia.d.zip p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_134_autoQC03dia.d.zip NA plotClick: fn has changed to /srv/www/htdocs//p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_068_autoQC03dia.d.zip p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_068_autoQC03dia.d.zip Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708330910146992000.json': Permission denied 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 NA p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip NA plotClick: fn has changed to /srv/www/htdocs//NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708416899980532000.json': Permission denied 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 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: 2023-12-22 10:50:11.014034 | timeMax: 2024-02-20 10:50:11.014614 | timeDiff: 5184000.00058079 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-22 09:50:11.014 | timeMax: 2024-02-20 09:50:11.015 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 848 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-22 11:16:27.262637 | timeMax: 2024-02-20 11:16:27.263287 | timeDiff: 5184000.00065041 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-22 10:16:27.26264 | timeMax: 2024-02-20 10:16:27.26329 | timeDiff: 5184000.00064993 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-22 10:16:27.263 | timeMax: 2024-02-20 10:16:27.263 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... NA nrow dataFiltered(): 162 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 324 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708424184199468000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708422607960853000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708420464001586000.json': Permission denied 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 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: 2023-12-24 09:19:08.269777 | timeMax: 2024-02-22 09:19:08.27159 | timeDiff: 5184000.00181365 nFacets: 4 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 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? input timeRange: 7776000 | timeMin: 2023-12-24 08:19:08.26978 | timeMax: 2024-02-22 08:19:08.27159 | timeDiff: 5184000.00181007 nFacets: 1 nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-24 08:19:08.27 | timeMax: 2024-02-22 08:19:08.272 | timeDiff: 5184000.00200009 nFacets: 1 nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... NA NA p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_162_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_162_autoQC03dia.d.zip NA plotClick: fn has changed to /srv/www/htdocs//NA p34254/Proteomics/TIMSTOF_1/analytic_20240221/zip/20240221_001_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p34254/Proteomics/TIMSTOF_1/analytic_20240221/zip/20240221_001_autoQC03dia.d.zip NA nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 828 using 'ggh4x' package ... 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:20:23.694062 | timeMax: 2024-02-22 09:20:23.69532 | timeDiff: 5184000.0012579 nFacets: 4 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:20:28.133386 | timeMax: 2024-02-22 09:20:28.134356 | timeDiff: 5184000.00096989 nFacets: 4 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 nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 828 using 'ggh4x' package ... nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? input timeRange: 7776000 | timeMin: 2023-12-24 08:20:28.13339 | timeMax: 2024-02-22 08:20:28.13436 | timeDiff: 5184000.00097013 nFacets: 1 nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-24 08:20:28.133 | timeMax: 2024-02-22 08:20:28.134 | timeDiff: 5184000.00100017 nFacets: 1 nrow dataFiltered(): 13 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708589942293313000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708590018456481000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:59:08.268525 | timeMax: 2024-02-22 09:59:08.269192 | timeDiff: 5184000.00066733 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 08:59:08.269 | timeMax: 2024-02-22 08:59:08.269 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:59:22.022898 | timeMax: 2024-02-22 09:59:22.023565 | timeDiff: 5184000.00066686 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 08:59:22.023 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:59:31.121383 | timeMax: 2024-02-22 09:59:31.121987 | timeDiff: 5184000.00060368 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 08:59:31.121 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:59:48.163646 | timeMax: 2024-02-22 09:59:48.164759 | timeDiff: 5184000.0011127 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 08:59:48.164 | timeMax: 2024-02-22 08:59:48.165 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 09:59:58.666928 | timeMax: 2024-02-22 09:59:58.667948 | timeDiff: 5184000.00102019 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-24 08:59:58.667 | timeMax: 2024-02-22 08:59:58.668 | timeDiff: 5184000.00099993 nFacets: 4 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 10:00:04.973847 | timeMax: 2024-02-22 10:00:04.974903 | timeDiff: 5184000.00105572 nFacets: 4 vals$rawrr: TRUE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: TRUE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 09:00:04.974 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). vals$rawrr: TRUE vals$rawrr: FALSE nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). vals$rawrr: TRUE vals$rawrr: TRUE 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 10:00:29.284077 | timeMax: 2024-02-22 10:00:29.284688 | timeDiff: 5184000.00061107 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 09:00:29.284 | timeMax: 2024-02-22 09:00:29.285 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). NA NA NA p3000/Proteomics/EXPLORIS_2/analytic_20240115/20230105_003_autoQC01.raw NA p34122/Proteomics/EXPLORIS_2/analytic_20240206/20240206_C34122_001_autoQC01.raw nFacets: 4 nrow dataFiltered(): 0 NA p3000/Proteomics/EXPLORIS_2/spfammatter_20240219/20240219_002_autoQC01.raw NA p3000/Proteomics/FUSION_2/analytic_20240214/20240214_001_autoQC01.raw NA p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_011_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_002_autoQC01_rep.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_006_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_006_autoQC01.raw Plotting chromatograms ... Read 22032 items plotClick: fn has changed to /srv/www/htdocs//p34169/Proteomics/EXPLORIS_2/analytic_20240207/20240207_C34169_006_autoQC01.raw p34169/Proteomics/EXPLORIS_2/analytic_20240207/20240207_C34169_006_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_001_autoQC01.raw NA nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA p34009/Proteomics/FUSION_2/unay_20240130/20240130_006_autoQC01.raw NA p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw Reading raw file: /srv/www/htdocs//p34169/Proteomics/EXPLORIS_2/analytic_20240207/20240207_C34169_006_autoQC01.raw Plotting chromatograms ... Read 22032 items p33989/Proteomics/EXPLORIS_2/analytic_20240119/20240119_C33989_001_autoQC01.raw NA p33989/Proteomics/EXPLORIS_2/analytic_20240119/20240119_C33989_001_autoQC01.raw NA p3000/Proteomics/EXPLORIS_2/analytic_20240115/20240115_002_autoQC01.raw 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: 2023-12-24 10:01:33.381273 | timeMax: 2024-02-22 10:01:33.381863 | timeDiff: 5184000.00059009 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 09:01:33.381 | timeMax: 2024-02-22 09:01:33.382 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 10:01:44.769156 | timeMax: 2024-02-22 10:01:44.769817 | timeDiff: 5184000.00066137 nFacets: 4 NA vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 09:01:44.769 | timeMax: 2024-02-22 09:01:44.77 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 30 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 30 rows containing missing values (`geom_point()`). NA plotClick: fn has changed to /srv/www/htdocs//NA Warning in renderUI() : raw file /srv/www/htdocs//NA does not exist. nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). plotClick: p34284/Proteomics/FUSION_2/adelizliang_20240215/20240214_001_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34284/Proteomics/FUSION_2/adelizliang_20240215/20240214_001_autoQC01.raw plotClick: plotClick: NA NA Reading raw file: /srv/www/htdocs//p34284/Proteomics/FUSION_2/adelizliang_20240215/20240214_001_autoQC01.raw Plotting chromatograms ... Read 22032 items vals$rawDiag: TRUE p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_001_autoQC01.raw NA plotClick: fn has changed to /srv/www/htdocs//NA Warning in renderUI() : raw file /srv/www/htdocs//NA does not exist. Read 22032 items Warning: Error in hist.default: 'x' must be numeric 171: stop 170: hist.default 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-rawrr-autoQC03-plotTools 1: runApp p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_006_autoQC01.raw vals$rawrr: TRUE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_001_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_001_autoQC01.raw p3000/Proteomics/FUSION_2/analytic_20240214/20240214_001_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_001_autoQC01.raw p3000/Proteomics/FUSION_2/analytic_20240214/20240214_002_autoQC01.raw NA plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/analytic_20240214/20240214_002_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_001_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_001_autoQC01.raw p3000/Proteomics/FUSION_2/analytic_20240214/20240214_002_autoQC01.raw NA p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_017_autoQC01.raw plotClick: nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-12-15 08:59:24.205 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 5961597.81900001 nFacets: 4 nrow dataFiltered(): 1456 using 'ggh4x' package ... Warning: Removed 12 rows containing missing values (`geom_point()`). plotClick: plotClick: NA nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1456 using 'ggh4x' package ... Warning: Removed 24 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_011_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34255/Proteomics/FUSION_2/fabiac_20240214/20240214_011_autoQC01.raw nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). NA p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw plotClick: nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 88 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 44 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_008_autoQC01.raw NA vals$rawrr: TRUE p33801/Proteomics/FUSION_2/wuethrich_20231221/20231221_001_autoQC01.raw vals$rawDiag: FALSE NA plotClick: fn has changed to /srv/www/htdocs//NA vals$rawDiag: TRUE vals$rawDiag: FALSE plotClick: vals$rawDiag: TRUE vals$rawDiag: FALSE plotClick: p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw vals$rawDiag: TRUE vals$rawDiag: FALSE plotClick: fn has changed to /srv/www/htdocs//p33801/Proteomics/FUSION_2/wuethrich_20231221/20231221_001_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw vals$rawDiag: TRUE vals$rawDiag: FALSE plotClick: Reading raw file: /srv/www/htdocs//p33801/Proteomics/FUSION_2/wuethrich_20231221/20231221_001_autoQC01.raw Plotting chromatograms ... Read 22032 items p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_008_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw plotClick: NA NA p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw p34006/Proteomics/FUSION_2/limingqin_20240119/20240119_013a_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240129/20240129_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: plotClick: NA p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). NA p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw plotClick: p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw NA NA p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw plotClick: plotClick: plotClick: plotClick: plotClick: fn has changed to /srv/www/htdocs//p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw plotClick: vals$rawDiag: TRUE vals$rawDiag: FALSE NA p34068/Proteomics/FUSION_2/aeberle_20240125/20240125_006_autoQC01.raw NA plotClick: fn has changed to /srv/www/htdocs//p34068/Proteomics/FUSION_2/aeberle_20240125/20240125_006_autoQC01.raw NA p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw NA p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw Plotting chromatograms ... Read 22032 items p33879/Proteomics/FUSION_2/chiawei_20240105/20240105_008_autoQC01.raw plotClick: NA plotClick: p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240129/20240129_001a_autoQC01.raw NA NA nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 30 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw plotClick: p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw plotClick: NA p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw plotClick: plotClick: NA p3000/Proteomics/FUSION_2/chiawei_20240104/20240104_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw NA NA p33478/Proteomics/FUSION_2/igonda_20231117/20231117_004_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240104/20240104_001_autoQC01.raw p34012/Proteomics/FUSION_2/analytic_20240119/20240119_C34012_004_autoQC01.raw plotClick: plotClick: p34068/Proteomics/FUSION_2/aeberle_20240125/20240125_006_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34068/Proteomics/FUSION_2/aeberle_20240125/20240125_006_autoQC01.raw plotClick: Reading raw file: /srv/www/htdocs//p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw Plotting chromatograms ... Read 22032 items input timeRange: 7776000 | timeMin: 2023-12-05 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6825402.92599988 nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). vals$rawDiag: TRUE plotChargeState reading index for 20240220_016_autoQC01.raw... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. input timeRange: 7776000 | timeMin: 2023-12-04 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6911802.92599988 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). vals$rawDiag: FALSE p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: NA input timeRange: 7776000 | timeMin: 2023-12-03 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6998202.92599988 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw plotClick: plotClick: plotClick: plotClick: plotClick: nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 20 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-11-26 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7603196.38899994 nFacets: 4 nrow dataFiltered(): 2064 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-02 08:59:52.398 | timeMax: 2024-02-22 08:59:48.165 | timeDiff: 7084795.76699996 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 09:01:46.427 | timeMax: 2024-02-22 09:01:44.77 | timeDiff: 6566398.34299994 nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). vals$rawrr: TRUE p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_017_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-11-29 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7343996.38899994 nFacets: 4 nrow dataFiltered(): 1888 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 08:59:09.29 | timeMax: 2024-02-22 08:59:08.269 | timeDiff: 6998398.97900009 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). NA p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw p33801/Proteomics/FUSION_2/wuethrich_20231221/20231221_001_autoQC01.raw NA p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240108/20240108_001_autoQC01.raw p33801/Proteomics/FUSION_2/wuethrich_20240113/20240113_001_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-12-12 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6220798.11100006 nFacets: 4 nrow dataFiltered(): 1584 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). NA p34176/Proteomics/FUSION_2/chiawei_20240207/20240207_010_autoQC01.raw NA p33801/Proteomics/FUSION_2/wuethrich_20231221/20231221_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: NA NA plotClick: fn has changed to /srv/www/htdocs//NA Warning in renderUI() : raw file /srv/www/htdocs//NA does not exist. plotClick: plotClick: nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 30 rows containing missing values (`geom_point()`). plotClick: p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_004_autoQC01.raw nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998396.38899994 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240104/20240104_003_autoQC01.raw plotClick: input timeRange: 7776000 | timeMin: 2023-12-05 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6825598.11100006 nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240104/20240104_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240104/20240104_003_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240104/20240104_004_autoQC01.raw NA p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: plotClick: p34009/Proteomics/FUSION_2/unay_20240124/20240124_001_autoQC01.raw NA plotClick: p33879/Proteomics/FUSION_2/chiawei_20240105/20240105_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_001b_autoQC01.raw plotClick: NA p33801/Proteomics/FUSION_2/wuethrich_20240111/20240111_004_autoQC01.raw NA nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-05 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6825402.92599988 nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). NA p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw Reading raw file: /srv/www/htdocs//p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases NA NA p33801/Proteomics/FUSION_2/wuethrich_20240117/20240117_001_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p33801/Proteomics/FUSION_2/wuethrich_20240117/20240117_001_autoQC01.raw plotClick: plotClick: fn has changed to /srv/www/htdocs//NA Warning in renderUI() : raw file /srv/www/htdocs//NA does not exist. p33665/Proteomics/FUSION_2/aeberle_20231211/20231211_005_autoQC01.raw nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). vals$rawDiag: TRUE vals$rawDiag: FALSE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 30 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-04 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6911802.92599988 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). NA NA p34009/Proteomics/FUSION_2/unay_20240130/20240130_006_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-12-03 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6998202.92599988 nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw NA nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-11-26 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7603196.38899994 nFacets: 4 nrow dataFiltered(): 2064 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). p34009/Proteomics/FUSION_2/unay_20240130/20240130_001_autoQC01.raw p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_008_autoQC01.raw p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). NA p3000/Proteomics/FUSION_2/chiawei_20240129/20240129_001a_autoQC01.raw nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). p26109/Proteomics/FUSION_2/tomasfranziska_20231130_ot/20231130_013_autoQC01.raw p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-11-29 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7343996.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 1888 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). NA NA nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-12 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6220798.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1584 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). p3000/Proteomics/FUSION_2/chiawei_20240103/20240103_004_autoQC01.raw p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-12-03 09:04:37.405 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998127.56999993 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). plotClick: NA input timeRange: 7776000 | timeMin: 2023-12-03 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998396.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-05 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6825598.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw NA p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw nothing to compact Reading raw file: /srv/www/htdocs//p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Read 22032 items Warning: Error in hist.default: 'x' must be numeric 171: stop 170: hist.default 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-rawrr-autoQC03-plotTools 1: runApp NA p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-12-05 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6825402.92599988 nothing to compact nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). plotClick: fn has changed to /srv/www/htdocs//p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw nothing to compact Reading raw file: /srv/www/htdocs//p33591/Proteomics/FUSION_2/hasanali_20231208/20231208_010_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases vals$rawDiag: TRUE vals$rawDiag: FALSE plotClick: input timeRange: 7776000 | timeMin: 2023-12-03 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6998202.92599988 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). NA plotClick: p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw NA input timeRange: 7776000 | timeMin: 2023-11-26 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7603196.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 2064 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). Reading raw file: /srv/www/htdocs//p33801/Proteomics/FUSION_2/wuethrich_20240117/20240117_001_autoQC01.raw Plotting chromatograms ... Read 22032 items p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-11-29 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7343996.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 1888 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1888 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-12 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6220798.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1584 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). nrow dataFiltered(): 1888 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:04:37.405 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998127.56999993 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998396.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-05 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6825598.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 39 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 26 rows containing missing values (`geom_point()`). vals$rawDiag: TRUE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-05 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6825402.92599988 nothing to compact nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6998202.92599988 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-11-26 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7603196.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 2064 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). p33879/Proteomics/FUSION_2/chiawei_20240108/20240108_001a_autoQC01.raw NA input timeRange: 7776000 | timeMin: 2023-11-29 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7343996.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 1888 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-12 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6220798.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1584 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). p3000/Proteomics/FUSION_2/chiawei_20240115/20240115_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw input timeRange: 7776000 | timeMin: 2023-12-03 09:04:37.405 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998127.56999993 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw nothing to compact Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw Plotting chromatograms ... Read 22032 items NA input timeRange: 7776000 | timeMin: 2023-12-05 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6825598.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998396.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-05 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6825402.92599988 nothing to compact nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-11-26 09:00:08.586 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 7603196.38899994 nothing to compact nFacets: 4 nrow dataFiltered(): 2064 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:02:39.098 | timeMax: 2024-02-22 08:59:22.024 | timeDiff: 6998202.92599988 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-12 08:59:33.011 | timeMax: 2024-02-22 08:59:31.122 | timeDiff: 6220798.11100006 nothing to compact nFacets: 4 nrow dataFiltered(): 1584 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-03 09:04:37.405 | timeMax: 2024-02-22 09:00:04.975 | timeDiff: 6998127.56999993 nothing to compact nFacets: 4 nrow dataFiltered(): 1712 using 'ggh4x' package ... Warning: Removed 13 rows containing missing values (`geom_point()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 10:13:14.487865 | timeMax: 2024-02-22 10:13:14.488558 | timeDiff: 5184000.00069284 nothing to compact nFacets: 4 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708593188254985000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592356628366000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 10:40:05.878742 | timeMax: 2024-02-22 10:40:05.879714 | timeDiff: 5184000.00097251 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-24 09:40:05.879 | timeMax: 2024-02-22 09:40:05.88 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592424085492000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw p33277/Proteomics/FUSION_2/roschi_20240220_one/20240220_001_autoQC01.raw NA p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 936 using 'ggh4x' package ... NA p34284/Proteomics/FUSION_2/adelizliang_20240215/20240215_005_autoQC03dda.raw NA p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_017_autoQC03dia.raw NA vals$rawrr: TRUE p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_017_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_017_autoQC03dia.raw Reading raw file: /srv/www/htdocs//p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_017_autoQC03dia.raw Plotting chromatograms ... Read 22032 items Plotting chromatograms ... Plotting chromatograms ... NA p34014/Proteomics/FUSION_2/analytic_20240119/20240119_C34014_005_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p34014/Proteomics/FUSION_2/analytic_20240119/20240119_C34014_005_autoQC03dia.raw Read 22032 items Reading raw file: /srv/www/htdocs//p34014/Proteomics/FUSION_2/analytic_20240119/20240119_C34014_005_autoQC03dia.raw Plotting chromatograms ... NA Plotting chromatograms ... Plotting chromatograms ... p34068/Proteomics/FUSION_2/aeberle_20240202/20240202_008_autoQC03dia.raw p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_017_autoQC03dia.raw NA vals$rawDiag: TRUE Plotting chromatograms ... plotChargeState reading index for 20240119_C34014_005_autoQC03dia.raw... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. plotScanTime Warning: Error in dplyr::mutate: ℹ In argument: `transient = dplyr::case_when(...)`. Caused by error in `dplyr::case_when()`: ! Failed to evaluate the left-hand side of formula 1. Caused by error: ! object 'FTResolution' not found 202: 201: signalCondition 200: signal_abort 199: abort 198: 197: signalCondition 196: signal_abort 195: abort 194: h 193: .handleSimpleError 192: eval_tidy 190: case_formula_evaluate 189: dplyr::case_when 188: eval 187: mask$eval_all_mutate 186: mutate_col 184: mutate_cols 183: mutate.data.frame 181: .calcTransient 170: plotScanTime 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-rawDiag-autoQC03-plot 1: runApp plotMzDistribution plotLockMassCorrection plotInjectionTime NA p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw p3000/Proteomics/FUSION_2/roschi_20240219_before_course/20240219_004_autoQC01.raw NA p34343/Proteomics/FUSION_2/giostrazza_20240220_omics_course/20240220_016_autoQC01.raw NA p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw plotClick: NA vals$rawrr: TRUE Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20240205/20240205_003_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708594800193525000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592365815841000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592394945010000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592399639567000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592383004136000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592490169859000.json': Permission denied 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 file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592344621382000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-24 16:53:39.385027 | timeMax: 2024-02-22 16:53:39.385831 | timeDiff: 5184000.00080442 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-24 15:53:39.385 | timeMax: 2024-02-22 15:53:39.386 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708592501463019000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708617216201690000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-25 09:41:56.785346 | timeMax: 2024-02-23 09:41:56.786068 | timeDiff: 5184000.00072241 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-25 08:41:56.785 | timeMax: 2024-02-23 08:41:56.786 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 912 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708677713712209000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-25 12:02:23.197175 | timeMax: 2024-02-23 12:02:23.200132 | timeDiff: 5184000.00295711 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-25 11:02:23.19717 | timeMax: 2024-02-23 11:02:23.20013 | timeDiff: 5184000.00295997 nFacets: 1 nFacets: 1 input timeRange: 7776000 | timeMin: 2023-12-25 11:02:23.197 | timeMax: 2024-02-23 11:02:23.2 | timeDiff: 5184000.00300002 nFacets: 1 nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 828 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp p33868/Proteomics/TIMSTOF_1/galliserena_20240117_/zip/20240117_001_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p33868/Proteomics/TIMSTOF_1/galliserena_20240117_/zip/20240117_001_autoQC03dia.d.zip p34002/Proteomics/TIMSTOF_1/spfammatter_20240126/zip/20240126_001_autoQC03dia.d.zip NA p34002/Proteomics/TIMSTOF_1/mbijnen_20240119_/zip/20240119_013_autoQC03dia.d.zip NA p33915/Proteomics/TIMSTOF_1/cfortes_20240129_/zip/20240129_007_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p33915/Proteomics/TIMSTOF_1/cfortes_20240129_/zip/20240129_007_autoQC03dia.d.zip p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_001_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_001_autoQC03dia.d.zip NA p34066/Proteomics/TIMSTOF_1/analytic_20240131_/zip/20240131_002_autoQC03dia.d.zip p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip plotClick: plotClick: plotClick: NA plotClick: fn has changed to /srv/www/htdocs//NA p34066/Proteomics/TIMSTOF_1/analytic_20240131_/zip/20240131_008_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p34066/Proteomics/TIMSTOF_1/analytic_20240131_/zip/20240131_008_autoQC03dia.d.zip plotClick: NA p34196/Proteomics/TIMSTOF_1/spfammatter_20240207_/zip/20240207_007_autoQC03dia.d.zip p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708686136654356000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-25 12:57:58.049288 | timeMax: 2024-02-23 12:57:58.050775 | timeDiff: 5184000.00148726 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-25 11:57:58.049 | timeMax: 2024-02-23 11:57:58.051 | timeDiff: 5184000.00200009 autoQC01 module APEX wide nrow: 261250 autoQC01 module APEX long nrow: 1044 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 54 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). p34208/Proteomics/QEXACTIVE_1/analytic_20240223/20240223_C34208_001_autoQC01.raw p34337/Proteomics/QEXACTIVE_1/analytic_20240221/20240221_C34337_001r_autoQC01.raw NA nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 nrow dataFiltered(): 377 using 'ggh4x' package ... p34230/Proteomics/QEXACTIVE_1/analytic_20240220/20240220_C34230_011_autoQC03dda.raw p34337/Proteomics/QEXACTIVE_1/analytic_20240221/20240221_C34337_011_autoQC03dda.raw NA p34337/Proteomics/QEXACTIVE_1/analytic_20240221/20240221_C34337_011_autoQC03dda.raw NA p34230/Proteomics/QEXACTIVE_1/analytic_20240220/20240220_C34230_011_autoQC03dda.raw p34189/Proteomics/QEXACTIVE_1/analytic_20240219/20240219_C34189_011_autoQC03dda.raw NA NA nFacets: 2 nrow dataFiltered(): 546 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 234 using 'ggh4x' package ... autoQC01 module APEX long nrow: 1080 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 2 rows containing missing values (`geom_line()`). p34360/Proteomics/LUMOS_2/analytic_20240222/20240222_C34360_001_autoQC01.raw p34326/Proteomics/LUMOS_2/akatic_20240223/20240223_001_autoQC01.raw NA p34326/Proteomics/LUMOS_2/akatic_20240223/20240223_001_autoQC01.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708689471299435000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 09:23:36.277548 | timeMax: 2024-02-26 09:23:36.278179 | timeDiff: 5184000.00063062 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-28 08:23:36.278 | timeMax: 2024-02-26 08:23:36.278 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 2 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(): 234 using 'ggh4x' package ... nrow dataFiltered(): 572 using 'ggh4x' package ... NA NA input timeRange: 7776000 | timeMin: 2023-11-30 08:23:41.324 | timeMax: 2024-02-26 08:23:36.278 | timeDiff: 7603194.95400023 nFacets: 3 nrow dataFiltered(): 793 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 09:37:40.640321 | timeMax: 2024-02-26 09:37:40.640925 | timeDiff: 5184000.00060415 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-28 08:37:40.64032 | timeMax: 2024-02-26 08:37:40.64093 | timeDiff: 5184000.00060987 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-28 08:37:40.64 | timeMax: 2024-02-26 08:37:40.641 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 918 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp NA p29033/Proteomics/TIMSTOF_1/radhika_20240223_prihepatocytes_DIA_DDA/zip/20240223_010_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p29033/Proteomics/TIMSTOF_1/radhika_20240223_prihepatocytes_DIA_DDA/zip/20240223_010_autoQC03dia.d.zip NA p29033/Proteomics/TIMSTOF_1/radhika_20240223_prihepatocytes_DIA_DDA/zip/20240223_010_autoQC03dia.d.zip Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708590024610416000.json': Permission denied 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(): 793 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nrow dataFiltered(): 324 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708935812769751000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 10:05:04.891192 | timeMax: 2024-02-26 10:05:04.891929 | timeDiff: 5184000.00073719 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-28 09:05:04.891 | timeMax: 2024-02-26 09:05:04.892 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 944 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 918 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp NA nrow dataFiltered(): 918 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-05 09:05:12.933 | timeMax: 2024-02-26 09:05:04.892 | timeDiff: 7171191.95899987 nFacets: 0 Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nFacets: 1 nrow dataFiltered(): 1152 using 'ggh4x' package ... nrow dataFiltered(): 1152 using 'ggh4x' package ... p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_001_autoQC03dia.d.zip NA p34113/Proteomics/TIMSTOF_1/egaehw_20240209_/zip/20240209_007_autoQC03dia.d.zip p34113/Proteomics/TIMSTOF_1/egaehw_20240209_/zip/20240209_001_autoQC03dia.d.zip NA p34254/Proteomics/TIMSTOF_1/analytic_20240221/zip/20240221_001_autoQC03dia.d.zip NA p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_068_autoQC03dia.d.zip p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip NA nrow dataFiltered(): 1152 using 'ggh4x' package ... p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_002_autoQC03dia.d.zip NA p23811/Proteomics/TIMSTOF_1/brzobohata_20240214_GLODprot/zip/20240215_068_autoQC03dia.d.zip NA p34113/Proteomics/TIMSTOF_1/egaehw_20240209_/zip/20240209_001_autoQC03dia.d.zip NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_001_autoQC03dia.d.zip fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 10:24:27.262646 | timeMax: 2024-02-26 10:24:27.263468 | timeDiff: 5184000.00082231 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-28 09:24:27.26265 | timeMax: 2024-02-26 09:24:27.26347 | timeDiff: 5184000.00081992 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-28 09:24:27.263 | timeMax: 2024-02-26 09:24:27.263 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 882 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp NA p34066/Proteomics/TIMSTOF_1/analytic_20240131_/zip/20240131_008_autoQC03dia.d.zip p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708939463887604000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 15:36:43.630521 | timeMax: 2024-02-26 15:36:43.63169 | timeDiff: 5184000.00116944 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 960 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-28 14:36:43.631 | timeMax: 2024-02-26 14:36:43.632 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 960 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 0 nFacets: 0 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 Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 900 using 'ggh4x' package ... p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708958198924836000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 15:45:55.379847 | timeMax: 2024-02-26 15:45:55.380496 | timeDiff: 5184000.00064969 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 input timeRange: 7776000 | timeMin: 2023-12-28 14:45:55.38 | timeMax: 2024-02-26 14:45:55.381 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 0 NA nFacets: 0 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 Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 900 using 'ggh4x' package ... p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip plotClick: plotClick: NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip plotClick: NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip NA p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip plotClick: plotClick: plotClick: plotClick: plotClick: plotClick: plotClick: plotClick: fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-28 16:23:19.60538 | timeMax: 2024-02-26 16:23:19.605968 | timeDiff: 5184000.0005877 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 960 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-28 15:23:19.605 | timeMax: 2024-02-26 15:23:19.606 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 960 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA p34196/Proteomics/TIMSTOF_1/spfammatter_20240207_/zip/20240207_007_autoQC03dia.d.zip plotClick: fn has changed to /srv/www/htdocs//p34196/Proteomics/TIMSTOF_1/spfammatter_20240207_/zip/20240207_007_autoQC03dia.d.zip p26109/Proteomics/TIMSTOF_1/rusdo_20240130_/zip/20240130_011_autoQC03dia.d.zip input timeRange: 7776000 | timeMin: 2023-12-05 15:23:20.838 | timeMax: 2024-02-26 15:23:19.606 | timeDiff: 7171198.76799989 nFacets: 4 nrow dataFiltered(): 1632 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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) Warning: Error in basename: a character vector argument expected 63: basename 62: use_tracking 1: runApp Warning: Error in basename: a character vector argument expected 63: basename 62: use_tracking 1: runApp Warning: Error in basename: a character vector argument expected 63: basename 62: use_tracking 1: runApp Warning: Error in basename: a character vector argument expected 63: basename 62: use_tracking 1: runApp Warning: Error in basename: a character vector argument expected 63: basename 62: use_tracking 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1708960996544364000.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