Listening on http://127.0.0.1:40261 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-09 13:19:40.702209 | timeMax: 2024-04-09 14:19:40.703191 | timeDiff: 5184000.00098205 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1632 Loading required package: ggh4x Loading required package: ggplot2 using 'ggh4x' package ... Warning: Removed 21 rows containing missing values (`geom_point()`). Warning: Removed 15 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2024-02-09 12:19:40.702 | timeMax: 2024-04-09 12:19:40.703 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1632 using 'ggh4x' package ... Warning: Removed 21 rows containing missing values (`geom_point()`). Warning: Removed 15 rows containing missing values (`geom_line()`). autoQC01 module APEX wide nrow: 264935 autoQC01 module APEX long nrow: 1224 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 54 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 08:51:39.53332 | timeMax: 2024-04-10 09:51:39.53389 | timeDiff: 5184000.0005703 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-02-10 07:51:39.533 | timeMax: 2024-04-10 07:51:39.534 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 1 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 11:21:34.327105 | timeMax: 2024-04-10 12:21:34.327689 | timeDiff: 5184000.00058413 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-02-10 10:21:34.327 | timeMax: 2024-04-10 10:21:34.328 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 1 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 14:34:04.755077 | timeMax: 2024-04-10 15:34:04.755708 | timeDiff: 5184000.00063014 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-02-10 13:34:04.755 | timeMax: 2024-04-10 13:34:04.756 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1312 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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(): 162 using 'ggh4x' package ... nrow dataFiltered(): 936 using 'ggh4x' package ... NA p3000/Proteomics/LUMOS_1/pgehrig_20240402_autoQC/20240408_045_autoQC03dda.raw vals$rawrr: TRUE plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_1/pgehrig_20240402_autoQC/20240408_045_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/LUMOS_1/pgehrig_20240402_autoQC/20240408_045_autoQC03dda.raw Plotting chromatograms ... Read 22032 items NA p3000/Proteomics/LUMOS_1/pgehrig_20240402_autoQC/20240408_045_autoQC03dda.raw p34610/Proteomics/LUMOS_1/mwolleb_20240409/20240410_010autoQC03dia.raw NA nrow dataFiltered(): 162 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 15:23:23.431061 | timeMax: 2024-04-10 16:23:23.431646 | timeDiff: 5184000.0005846 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$rawDiag: FALSE nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-02-10 14:23:23.431 | timeMax: 2024-04-10 14:23:23.432 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 0 NA nFacets: 0 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$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(): 612 using 'ggh4x' package ... nFacets: 0 nFacets: 1 nrow dataFiltered(): 90 using 'ggh4x' package ... p34614/Proteomics/TIMSTOFFLEX_1/rusdo_20240314/zip/S1-B3_20240314_015_autoQC03dia_123_3-14-2024_20-20-38.d.zip p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A2_20240212_002_autoQC03dia_60spd_1_2-12-2024_18-52-28_19.d.zip NA p33915/Proteomics/TIMSTOFFLEX_1/analytic_20240212/zip/S1-A2_20240212_002_autoQC03dia_60spd_1_2-12-2024_18-52-28_19.d.zip NA p34614/Proteomics/TIMSTOFFLEX_1/rusdo_20240314/zip/S1-B3_20240314_015_autoQC03dia_123_3-14-2024_20-20-38.d.zip nFacets: 4 nrow dataFiltered(): 0 nFacets: 4 nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 656 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1392 using 'ggh4x' package ... Warning: Removed 9 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1696 using 'ggh4x' package ... Warning: Removed 24 rows containing missing values (`geom_point()`). Warning: Removed 7 rows containing missing values (`geom_line()`). nFacets: 1 nFacets: 1 nrow dataFiltered(): 0 nrow dataFiltered(): 403 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 247 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 216 using 'ggh4x' package ... nFacets: 2 nrow dataFiltered(): 390 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 247 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 216 using 'ggh4x' package ... nFacets: 2 nrow dataFiltered(): 390 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 247 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 216 using 'ggh4x' package ... nFacets: 2 nrow dataFiltered(): 390 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... input timeRange: 31536000 | timeMin: 2024-02-10 14:23:23.431 | timeMax: 2024-04-10 16:26:02.370978 | timeDiff: 5184158.93997765 nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... input timeRange: 31536000 | timeMin: 2024-02-10 14:23:23.431 | timeMax: 2024-04-10 14:26:02.371 | timeDiff: 5184158.94000006 nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 162 using 'ggh4x' package ... input timeRange: 31536000 | timeMin: 2024-01-24 14:26:02.385 | timeMax: 2024-04-10 14:26:02.371 | timeDiff: 6652799.98600006 nFacets: 4 nrow dataFiltered(): 1300 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 216 using 'ggh4x' package ... input timeRange: 31536000 | timeMin: 2023-05-22 14:26:05.494 | timeMax: 2024-04-10 14:26:02.371 | timeDiff: 27993596.8770001 nFacets: 5 nrow dataFiltered(): 5954 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(): 468 using 'ggh4x' package ... input timeRange: 31536000 | timeMin: 2023-05-06 14:26:08.959 | timeMax: 2024-04-10 14:26:02.371 | timeDiff: 29375993.4119999 nFacets: 5 nrow dataFiltered(): 6162 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(): 468 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 1620 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 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$autoQC03-DDA-plot 1: runApp nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 1443 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 1586 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 990 using 'ggh4x' package ... nFacets: 0 nrow dataFiltered(): 0 nFacets: 1 nrow dataFiltered(): 1620 using 'ggh4x' package ... Warning: Error in graphics::plot.new: figure margins too large 104: graphics::plot.new 101: startPNG 100: plotPNG 99: resizeSavedPlot 97: func 95: f 94: Reduce 85: do 84: hybrid_chain 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nFacets: 3 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$autoQC03-DDA-plot 1: runApp nFacets: 1 nrow dataFiltered(): 576 using 'ggh4x' package ... nrow dataFiltered(): 3237 using 'ggh4x' package ... NA NA nrow dataFiltered(): 3237 using 'ggh4x' package ... nrow dataFiltered(): 3237 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 1586 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 990 using 'ggh4x' package ... nrow dataFiltered(): 1586 using 'ggh4x' package ... nrow dataFiltered(): 990 using 'ggh4x' package ... nrow dataFiltered(): 1586 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 16:04:30.826117 | timeMax: 2024-04-10 17:04:30.827071 | timeDiff: 5184000.00095391 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$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2024-02-10 15:04:30.826 | timeMax: 2024-04-10 15:04:30.827 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 16:05:45.193706 | timeMax: 2024-04-10 17:05:45.194714 | timeDiff: 5184000.0010078 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$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2024-02-10 15:05:45.194 | timeMax: 2024-04-10 15:05:45.195 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1392 using 'ggh4x' package ... Warning: Removed 9 rows containing missing values (`geom_point()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-02-10 16:26:38.246651 | timeMax: 2024-04-10 17:26:38.247514 | timeDiff: 5184000.0008626 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 input timeRange: 7776000 | timeMin: 2024-02-10 15:26:38.247 | timeMax: 2024-04-10 15:26:38.248 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1392 using 'ggh4x' package ... Warning: Removed 9 rows containing missing values (`geom_point()`). Execution halted Warning messages: 1: agg could not write to the given file 2: agg could not write to the given file 3: agg could not write to the given file 4: agg could not write to the given file 5: agg could not write to the given file 6: agg could not write to the given file