Listening on http://127.0.0.1:34445 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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 11:56:40.635463 | timeMax: 2025-01-06 11:56:40.636055 | timeDiff: 5184000.00059199 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 221 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 270 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 270 Loading required package: ggh4x Loading required package: ggplot2 Attaching package: 'ggh4x' The following object is masked from 'package:ggplot2': guide_axis_logticks using 'ggh4x' package ... nrow dataFiltered(): 221 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 10:56:40.63546 | timeMax: 2025-01-06 10:56:40.63605 | timeDiff: 5184000.00059009 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 10:56:40.635 | timeMax: 2025-01-06 10:56:40.636 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 10:56:42.81532 | timeMax: 2025-01-06 10:56:40.636 | timeDiff: 7775997.8206799 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 450 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 13:56:48.605974 | timeMax: 2025-01-06 10:56:40.636 | timeDiff: 7772392.03002548 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 450 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 11:56:48.606 | timeMax: 2025-01-06 10:56:40.636 | timeDiff: 7772392.02999997 nrow dataFiltered(): 299 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 299 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 11:57:03.751197 | timeMax: 2025-01-06 11:57:03.751786 | timeDiff: 5184000.00058985 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 10:57:03.751 | timeMax: 2025-01-06 10:57:03.752 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). NA p37070/Proteomics/QEXACTIVE_1/analytic_20241202/20241202_C37070_001_autoQC01.raw p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw NA p36987/Proteomics/QEXACTIVE_1/analytic_20241120/20241120_C36987_005_autoQC01.raw p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 11:58:56.052226 | timeMax: 2025-01-06 11:58:56.052864 | timeDiff: 5184000.00063825 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 10:58:56.052 | timeMax: 2025-01-06 10:58:56.053 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_001_autoQC01.raw NA p3000/Proteomics/QEXACTIVE_1/pgehrig_20241205_gel_bands/20240512_01_autoQC01.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736161019768888000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp p37174/Proteomics/QEXACTIVE_1/analytic_20241206/20241206_C37174_001_autoQC01.raw NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 11:59:22.048375 | timeMax: 2025-01-06 11:59:22.048985 | timeDiff: 5184000.00060916 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-11-07 10:59:22.048 | timeMax: 2025-01-06 10:59:22.049 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). Reading /scratch/DIAQC/qc/dump/comet.RData ... 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(): 221 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 270 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 221 using 'ggh4x' package ... p37307/Proteomics/EXPLORIS_1/analytic_20241219/20241219_C37307_021_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_1736160996290326000.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$rawrr: TRUE vals$rawDiag: TRUE p37307/Proteomics/EXPLORIS_1/analytic_20241219/20241219_C37307_021_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p37307/Proteomics/EXPLORIS_1/analytic_20241219/20241219_C37307_021_autoQC03dda.raw plotChargeState Reading raw file: /srv/www/htdocs//p37307/Proteomics/EXPLORIS_1/analytic_20241219/20241219_C37307_021_autoQC03dda.raw Plotting chromatograms ... Read 22032 items 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$autoQC03-DDA-rawDiag-autoQC03-plot 1: runApp reading index for 20241219_C37307_021_autoQC03dda.raw... plotInjectionTime plotCycleLoad `geom_smooth()` using formula = 'y ~ x' plotScanTime plotTicBasepeak plotLockMassCorrection plotMzDistribution plotInjectionTime plotTicBasepeak Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736161158520564000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 12:10:14.612159 | timeMax: 2025-01-06 12:10:14.612786 | timeDiff: 5184000.00062656 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 11:10:14.612 | timeMax: 2025-01-06 11:10:14.613 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). NA p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_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_1736161132501310000.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 observe() : timeDiff is higher than timeRange input timeRange: 7776000 | timeMin: 2024-11-07 11:10:14.612 | timeMax: 2025-01-06 12:10:48.755523 | timeDiff: 5184034.14352322 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 11:10:14.612 | timeMax: 2025-01-06 11:10:48.756 | timeDiff: 5184034.14400005 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 12:11:01.354221 | timeMax: 2025-01-06 12:11:01.354868 | timeDiff: 5184000.00064707 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 11:11:01.354 | timeMax: 2025-01-06 11:11:01.355 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736161811000367000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 13:53:18.791555 | timeMax: 2025-01-06 13:53:18.792124 | timeDiff: 5184000.00056934 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 195 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 180 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 180 using 'ggh4x' package ... nrow dataFiltered(): 195 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 12:53:18.79155 | timeMax: 2025-01-06 12:53:18.79212 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 12:53:18.792 | timeMax: 2025-01-06 12:53:18.792 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 195 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... nrow dataFiltered(): 195 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 195 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_2/antdit_20241213/20241213_002_autoQC03dda.raw p37209/Proteomics/EXPLORIS_2/analytic_20241210/20241210_C37209_029_autoQC03dda.raw NA input timeRange: 7776000 | timeMin: 2024-10-08 12:53:20.43516 | timeMax: 2025-01-06 12:53:18.792 | timeDiff: 7775998.35684013 nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 378 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 15:53:53.387042 | timeMax: 2025-01-06 12:53:18.792 | timeDiff: 7772365.40495849 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 378 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 13:53:53.387 | timeMax: 2025-01-06 12:53:18.792 | timeDiff: 7772365.40499997 nFacets: 1 nrow dataFiltered(): 299 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 450 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 306 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$autoQC03-DDA-plot 1: runApp p37124/Proteomics/TIMSTOFFLEX_1/franzoso_20241220_/zip/20241220_014_autoQC03dia_S1-B2_2529.d.zip NA nFacets: 0 Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nFacets: 1 nrow dataFiltered(): 1008 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_1736167995304674000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 14:00:11.389078 | timeMax: 2025-01-06 14:00:11.389668 | timeDiff: 5184000.00059032 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 13:00:11.389 | timeMax: 2025-01-06 13:00:11.39 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`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_1736161857815270000.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: 2024-11-07 13:00:11.389 | timeMax: 2025-01-04 13:00:12.484 | timeDiff: 5011201.09500003 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 13:00:11.389 | timeMax: 2025-01-06 13:00:27.55329 | timeDiff: 5184016.16429019 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 13:00:11.389 | timeMax: 2025-01-06 13:00:27.553 | timeDiff: 5184016.16400003 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 14:22:30.476809 | timeMax: 2025-01-06 14:22:30.477387 | timeDiff: 5184000.00057817 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 221 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 270 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 221 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 13:22:30.47681 | timeMax: 2025-01-06 13:22:30.47739 | timeDiff: 5184000.00057983 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 13:22:30.477 | timeMax: 2025-01-06 13:22:30.477 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 14:23:03.62263 | timeMax: 2025-01-06 14:23:03.623207 | timeDiff: 5184000.0005765 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-11-07 13:23:03.623 | timeMax: 2025-01-06 13:23:03.623 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). Reading /scratch/DIAQC/qc/dump/comet.RData ... 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(): 221 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 270 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 221 using 'ggh4x' package ... p37307/Proteomics/EXPLORIS_1/analytic_20241219/20241219_C37307_020_autoQC01_20241221025027.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736169747006780000.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: 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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 14:36:06.720899 | timeMax: 2025-01-06 14:36:06.721479 | timeDiff: 5184000.00058031 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 13:36:06.721 | timeMax: 2025-01-06 13:36:06.721 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 14:36:20.874797 | timeMax: 2025-01-06 14:36:20.875375 | timeDiff: 5184000.00057817 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736168407862224000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 13:36:20.875 | timeMax: 2025-01-06 13:36:20.875 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`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_1736170577422399000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 15:40:42.235516 | timeMax: 2025-01-06 15:40:42.236092 | timeDiff: 5184000.0005765 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 221 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 270 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 221 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 14:40:42.23552 | timeMax: 2025-01-06 14:40:42.23609 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-07 14:40:42.236 | timeMax: 2025-01-06 14:40:42.236 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... NA nrow dataFiltered(): 221 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 221 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736169780134614000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp nFacets: 1 nrow dataFiltered(): 208 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... nrow dataFiltered(): 208 using 'ggh4x' package ... nrow dataFiltered(): 208 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 208 using 'ggh4x' package ... p3000/Proteomics/EXPLORIS_2/lkunz_20250106/20250106_004_autoQC03dda.raw input timeRange: 7776000 | timeMin: 2024-10-08 14:40:43.69682 | timeMax: 2025-01-06 14:40:42.236 | timeDiff: 7775998.53918004 nFacets: 1 nrow dataFiltered(): 273 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 378 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 17:41:22.138761 | timeMax: 2025-01-06 14:40:42.236 | timeDiff: 7772360.09723902 nrow dataFiltered(): 273 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 273 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 378 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-10-08 15:41:22.139 | timeMax: 2025-01-06 14:40:42.236 | timeDiff: 7772360.09700012 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736174438756131000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-07 15:56:00.904491 | timeMax: 2025-01-06 15:56:00.905067 | timeDiff: 5184000.00057602 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-07 14:56:00.904 | timeMax: 2025-01-06 14:56:00.905 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736170563198278000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 08:12:20.997619 | timeMax: 2025-01-07 08:12:20.9982 | timeDiff: 5184000.00058126 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1072 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1072 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 07:12:20.998 | timeMax: 2025-01-07 07:12:20.998 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1072 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 13:03:38.841244 | timeMax: 2025-01-07 13:03:38.841823 | timeDiff: 5184000.00057936 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 12:03:38.841 | timeMax: 2025-01-07 12:03:38.842 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_18_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_18_autoQC01.raw NA p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_18_autoQC01.raw NA p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_18_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_1736251414979554000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 13:46:51.766255 | timeMax: 2025-01-07 13:46:51.766827 | timeDiff: 5184000.00057268 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 12:46:51.766 | timeMax: 2025-01-07 12:46:51.767 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). plotClick: fn has changed to /srv/www/htdocs//p37174/Proteomics/QEXACTIVE_1/analytic_20241218/20241218_C37174_002_autoQC01.raw p37174/Proteomics/QEXACTIVE_1/analytic_20241218/20241218_C37174_002_autoQC01.raw p37328/Proteomics/QEXACTIVE_1/analytic_20241218/20241218_C37328_001_autoQC01.raw input timeRange: 7776000 | timeMin: 2024-11-08 12:46:51.766 | timeMax: 2025-01-07 12:46:53.17639 | timeDiff: 5184001.4103899 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-08 12:46:51.766 | timeMax: 2025-01-07 12:46:53.176 | timeDiff: 5184001.41000009 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 286 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 0 nrow dataFiltered(): 0 nrow dataFiltered(): 286 using 'ggh4x' package ... NA plotClick: fn has changed to /srv/www/htdocs//p37362/Proteomics/QEXACTIVE_1/analytic_20250106/20250106_C37362_005_autoQC03dda.raw p37362/Proteomics/QEXACTIVE_1/analytic_20250106/20250106_C37362_005_autoQC03dda.raw NA p37362/Proteomics/QEXACTIVE_1/analytic_20250106/20250106_C37362_005_autoQC03dda.raw plotClick: NA p37362/Proteomics/QEXACTIVE_1/analytic_20250106/20250106_C37362_005_autoQC03dda.raw plotClick: plotClick: fn has changed to /srv/www/htdocs//NA NA NA p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw NA p37362/Proteomics/QEXACTIVE_1/analytic_20241223/20241223_C37362_004_autoQC01.raw plotClick: NA p37174/Proteomics/QEXACTIVE_1/analytic_20241218/20241218_C37174_002_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p37174/Proteomics/QEXACTIVE_1/analytic_20241218/20241218_C37174_002_autoQC01.raw plotClick: plotClick: NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736254008304720000.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_1736233937430203000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 14:55:56.703232 | timeMax: 2025-01-07 14:55:56.703839 | timeDiff: 5184000.00060654 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1024 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-11-08 13:55:56.703 | timeMax: 2025-01-07 13:55:56.704 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_point()`). NA nFacets: 4 nrow dataFiltered(): 1072 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_point()`). Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 364 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 144 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 364 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 728 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 364 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736258153153365000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 15:14:43.052944 | timeMax: 2025-01-07 15:14:43.053652 | timeDiff: 5184000.00070834 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 14:14:43.053 | timeMax: 2025-01-07 14:14:43.054 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_18_autoQC01.raw NA Reading /scratch/DIAQC/qc/dump/comet.RData ... 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: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) autoQC01 module APEX wide nrow: 286440 autoQC01 module APEX long nrow: 0 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 autoQC01 module APEX long nrow: 1008 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 14 rows containing missing values or values outside the scale range (`geom_point()`). nFacets: 4 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 728 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 180 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 180 using 'ggh4x' package ... nrow dataFiltered(): 728 using 'ggh4x' package ... NA plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_19_autoQC03dda.raw p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241217_19_autoQC03dda.raw NA input timeRange: 7776000 | timeMin: 2024-11-08 14:14:43.053 | timeMax: 2025-01-07 14:14:44.43529 | timeDiff: 5184001.38229012 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 14:14:43.053 | timeMax: 2025-01-07 14:14:44.435 | timeDiff: 5184001.38199997 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 728 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 1072 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). nFacets: 1 nrow dataFiltered(): 221 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... autoQC01 module APEX long nrow: 1008 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 4 rows containing missing values or values outside the scale range (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-12-05 14:15:48.703 | timeMax: 2025-01-07 14:14:44.435 | timeDiff: 2851135.73199987 nFacets: 4 nrow dataFiltered(): 384 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). nFacets: 4 nrow dataFiltered(): 384 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 15:29:49.717336 | timeMax: 2025-01-07 15:29:49.717914 | timeDiff: 5184000.0005784 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 14:29:49.717 | timeMax: 2025-01-07 14:29:49.718 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 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_1736260186139447000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 15:30:26.357139 | timeMax: 2025-01-07 15:30:26.357725 | timeDiff: 5184000.00058579 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1072 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1072 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 14:30:26.357 | timeMax: 2025-01-07 14:30:26.358 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1072 using 'ggh4x' package ... NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 15:41:05.803685 | timeMax: 2025-01-07 15:41:05.804256 | timeDiff: 5184000.00057149 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 14:41:05.804 | timeMax: 2025-01-07 14:41:05.804 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1344 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_1736259279582354000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 15:43:42.238445 | timeMax: 2025-01-07 15:43:42.239025 | timeDiff: 5184000.00058031 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 14:43:42.238 | timeMax: 2025-01-07 14:43:42.239 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736260862303172000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 15:52:52.713991 | timeMax: 2025-01-07 15:52:52.714569 | timeDiff: 5184000.00057745 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 14:52:52.714 | timeMax: 2025-01-07 14:52:52.715 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 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_1736261018759886000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 16:07:28.687515 | timeMax: 2025-01-07 16:07:28.6881 | timeDiff: 5184000.00058436 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-08 15:07:28.688 | timeMax: 2025-01-07 15:07:28.688 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736261569248746000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 16:24:54.438955 | timeMax: 2025-01-07 16:24:54.439742 | timeDiff: 5184000.00078726 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 input timeRange: 7776000 | timeMin: 2024-11-08 15:24:54.439 | timeMax: 2025-01-07 15:24:54.44 | timeDiff: 5184000.00100017 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`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_1736262444875578000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-08 16:33:39.443318 | timeMax: 2025-01-07 16:33:39.443895 | timeDiff: 5184000.00057697 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 784 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-11-08 15:33:39.443 | timeMax: 2025-01-07 15:33:39.444 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 784 using 'ggh4x' package ... Warning: Removed 48 rows containing missing values or values outside the scale range (`geom_point()`). Warning: Removed 15 rows containing missing values or values outside the scale range (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736263489420484000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736260222870690000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736264015937250000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 08:35:27.392321 | timeMax: 2025-01-08 08:35:27.39292 | timeDiff: 5184000.00059915 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Reading /scratch/DIAQC/qc/dump/comet.RData ... reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) input timeRange: 7776000 | timeMin: 2024-11-09 07:35:27.39232 | timeMax: 2025-01-08 07:35:27.39292 | timeDiff: 5184000.00059986 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 09:15:28.441144 | timeMax: 2025-01-08 09:15:28.441727 | timeDiff: 5184000.00058317 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1344 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1344 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 08:15:28.441 | timeMax: 2025-01-08 08:15:28.442 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_002_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_002_autoQC01.raw Reading /scratch/DIAQC/qc/dump/comet.RData ... 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(): 780 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 198 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 780 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw plotClick: NA NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_005_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_005_autoQC03dia.raw NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_005_autoQC03dia.raw fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 09:17:10.642216 | timeMax: 2025-01-08 09:17:10.642792 | timeDiff: 5184000.00057673 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 4 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 468 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 162 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 162 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 08:17:10.64222 | timeMax: 2025-01-08 08:17:10.64279 | timeDiff: 5184000.00057006 nFacets: 4 nrow dataFiltered(): 468 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 08:17:10.642 | timeMax: 2025-01-08 08:17:10.643 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 468 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... p3000/Proteomics/FUSION_2/chiawei_20250107/20250107_C3000_002_autoQC03dia.raw nFacets: 4 nrow dataFiltered(): 780 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 198 using 'ggh4x' package ... NA NA p3000/Proteomics/LUMOS_2/cfortes_20241209_autoQC/20241209_004_autoQC03dia.raw NA p37115/Proteomics/LUMOS_2/analytic_20241129/20241129_C37115_007_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p37115/Proteomics/LUMOS_2/analytic_20241129/20241129_C37115_007_autoQC03dia.raw NA plotClick: fn has changed to /srv/www/htdocs//p37033/Proteomics/LUMOS_2/analytic_20241126/20241128_C37033_020_autoQC03dia.raw p37033/Proteomics/LUMOS_2/analytic_20241126/20241128_C37033_020_autoQC03dia.raw NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw plotClick: NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw NA nrow dataFiltered(): 780 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 780 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736321723878674000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 10:25:21.382522 | timeMax: 2025-01-08 10:25:21.383173 | timeDiff: 5184000.00065112 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1072 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1072 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 09:25:21.383 | timeMax: 2025-01-08 09:25:21.383 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1072 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_1736328317839201000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 14:42:00.293624 | timeMax: 2025-01-08 14:42:00.294311 | timeDiff: 5184000.00068712 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 input timeRange: 7776000 | timeMin: 2024-11-09 13:42:00.294 | timeMax: 2025-01-08 13:42:00.294 | timeDiff: 5184000 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1056 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1056 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 1344 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_002_autoQC01.raw NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_002_autoQC01.raw p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_002_autoQC01.raw p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_001_autoQC01.raw Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 780 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 198 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 780 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw NA NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_002_autoQC01.raw NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_001_autoQC01.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736343716800104000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 15:51:59.16988 | timeMax: 2025-01-08 15:51:59.170458 | timeDiff: 5184000.00057721 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1040 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1040 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1040 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 14:51:59.17 | timeMax: 2025-01-08 14:51:59.17 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1040 using 'ggh4x' package ... NA p3000/Proteomics/EXPLORIS_2/antdit_20241126/20241126_003_autoQC01.raw NA input timeRange: 7776000 | timeMin: 2024-11-17 14:52:00.204 | timeMax: 2025-01-08 14:51:59.17 | timeDiff: 4492798.96600008 nFacets: 4 nrow dataFiltered(): 896 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-12-26 14:54:41.603 | timeMax: 2025-01-08 14:51:59.17 | timeDiff: 1123037.56700015 nFacets: 4 nrow dataFiltered(): 16 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? `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? input timeRange: 7776000 | timeMin: 2024-12-14 14:54:46.541 | timeMax: 2025-01-08 14:51:59.17 | timeDiff: 2159832.62900019 nFacets: 4 nrow dataFiltered(): 144 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 0 nFacets: 4 nrow dataFiltered(): 128 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-29 14:54:50.058 | timeMax: 2025-01-08 14:51:59.17 | timeDiff: 3455829.11199999 nFacets: 4 nrow dataFiltered(): 688 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_1736324124963413000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 16:26:43.451067 | timeMax: 2025-01-08 16:26:43.451657 | timeDiff: 5184000.00058985 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1360 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1360 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 15:26:43.451 | timeMax: 2025-01-08 15:26:43.452 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1360 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_001_autoQC01.raw NA p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_001_autoQC01.raw NA Reading /scratch/DIAQC/qc/dump/comet.RData ... 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(): 780 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 198 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 780 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw NA NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_005_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_005_autoQC03dia.raw plotClick: plotClick: plotClick: plotClick: fn has changed to /srv/www/htdocs//NA p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250107/20250107_C3000_004_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_1736349999975947000.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 Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 16:50:23.40773 | timeMax: 2025-01-08 16:50:23.408302 | timeDiff: 5184000.00057149 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1360 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1360 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 15:50:23.408 | timeMax: 2025-01-08 15:50:23.408 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1360 using 'ggh4x' package ... Reading /scratch/DIAQC/qc/dump/comet.RData ... nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 832 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 198 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 832 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736324227148565000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp NA p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241213_10_autoQC03dda.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1736347915658797000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw p3000/Proteomics/LUMOS_2/pgehrig_20241213_2PCA_gel/20241213_10_autoQC03dda.raw NA p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ... nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-11-09 17:02:11.831447 | timeMax: 2025-01-08 17:02:11.832034 | timeDiff: 5184000.00058722 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1360 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$__autoQC01__-plot 1: runApp nrow dataFiltered(): 1360 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-11-09 16:02:11.831 | timeMax: 2025-01-08 16:02:11.832 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1360 using 'ggh4x' package ... Reading /scratch/DIAQC/qc/dump/comet.RData ... 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(): 832 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 198 Warning: Error in .ggplot: !is.null(variables) is not TRUE 173: 172: stop 171: stopifnot 170: .ggplot 169: ggplot2FUN 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 832 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw NA plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw plotClick: p3000/Proteomics/LUMOS_2/analytic_20250108/20250108_C3000_004_autoQC03dda.raw NA input timeRange: 7776000 | timeMin: 2024-10-30 16:02:19.582 | timeMax: 2025-01-08 16:02:11.832 | timeDiff: 6047992.25 nFacets: 4 nrow dataFiltered(): 988 using 'ggh4x' package ... nFacets: 1 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_1736352128326401000.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