Listening on http://127.0.0.1:34421 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-01 17:56:48.80127 | timeMax: 2024-07-31 17:56:48.801854 | timeDiff: 5184000.00058389 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-01 17:56:53.08408 | timeMax: 2024-07-31 17:56:53.084657 | timeDiff: 5184000.00057697 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-01 15:56:48.801 | timeMax: 2024-07-31 15:56:48.802 | timeDiff: 5184000.00099993 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 input timeRange: 7776000 | timeMin: 2024-06-01 15:56:53.084 | timeMax: 2024-07-31 15:56:53.085 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 0 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 468 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(): 78 using 'ggh4x' package ... NA p35657/Proteomics/TIMSTOF_1/jonas_20240731_JE_B0604/zip/20240731_000_autoQC03dia.d.zip NA plotClick: fn has changed to /srv/www/htdocs//NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Warning: Error in if: missing value where TRUE/FALSE needed 1: runApp input timeRange: 1209600 | timeMin: 2024-07-24 20:26:54.485993 | timeMax: 2024-07-31 20:26:54.486037 | timeDiff: 604800.000043869 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Warning: Error in if: missing value where TRUE/FALSE needed 1: runApp input timeRange: 1209600 | timeMin: 2024-07-24 22:01:29.857355 | timeMax: 2024-07-31 22:01:29.857398 | timeDiff: 604800.000043631 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-02 07:48:17.720386 | timeMax: 2024-08-01 07:48:17.720945 | timeDiff: 5184000.00055909 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 360 using 'ggh4x' package ... nrow dataFiltered(): 364 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-06-02 05:48:17.72039 | timeMax: 2024-08-01 05:48:17.72095 | timeDiff: 5184000.00056005 nFacets: 1 nrow dataFiltered(): 364 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-06-02 05:48:17.72 | timeMax: 2024-08-01 05:48:17.721 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 364 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... nFacets: 2 nrow dataFiltered(): 507 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 432 using 'ggh4x' package ... NA vals$rawrr: TRUE p3000/Proteomics/LUMOS_2/roschi_20240723_K652_DDA_Test/20240727_012_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20240723_K652_DDA_Test/20240727_012_autoQC03dia.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20240723_K652_DDA_Test/20240727_012_autoQC03dia.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Plotting chromatograms ... Plotting chromatograms ... Plotting chromatograms ... Plotting chromatograms ... Plotting chromatograms ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp Warning: Error in if: missing value where TRUE/FALSE needed 1: runApp input timeRange: 1209600 | timeMin: 2024-07-29 09:44:50.829641 | timeMax: 2024-08-05 09:44:50.829684 | timeDiff: 604800.000043392 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-06 10:23:26.53237 | timeMax: 2024-08-05 10:23:26.532927 | timeDiff: 5184000.00055623 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 351 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-06-06 08:23:26.53237 | timeMax: 2024-08-05 08:23:26.53293 | timeDiff: 5184000.00055981 nFacets: 1 nrow dataFiltered(): 351 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-06-06 08:23:26.532 | timeMax: 2024-08-05 08:23:26.533 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 351 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-06 10:23:37.522863 | timeMax: 2024-08-05 10:23:37.523435 | 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$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2024-06-06 08:23:37.523 | timeMax: 2024-08-05 08:23:37.523 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1312 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-06 17:35:56.403058 | timeMax: 2024-08-05 17:35:56.403628 | timeDiff: 5184000.00057006 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 0 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DDA-ui 1: runApp reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-ui 1: runApp nFacets: 1 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 342 using 'ggh4x' package ... nrow dataFiltered(): 351 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-06-06 15:35:56.40306 | timeMax: 2024-08-05 15:35:56.40363 | timeDiff: 5184000.00056982 nFacets: 1 nrow dataFiltered(): 351 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-06-06 15:35:56.403 | timeMax: 2024-08-05 15:35:56.404 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 351 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 342 using 'ggh4x' package ... NA p35806/Proteomics/EXPLORIS_2/analytic_20240731/20240731_C35806_018_autoQC03dda.raw p3000/Proteomics/EXPLORIS_2/lkunz_20240729/20240729_004_autoQC03dia.raw nrow dataFiltered(): 351 using 'ggh4x' package ... p35806/Proteomics/EXPLORIS_2/analytic_20240731/20240731_C35806_018_autoQC03dda.raw fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-07 08:53:38.226676 | timeMax: 2024-08-06 08:53:38.227273 | timeDiff: 5184000.00059652 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$rawDiag: FALSE nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-06-07 06:53:38.227 | timeMax: 2024-08-06 06:53:38.227 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 1 row containing missing values or values outside the scale range (`geom_point()`). Warning in observe() : timeDiff is higher than timeRange vals$rawrr: TRUE plotClick: fn has changed to /srv/www/htdocs//p35806/Proteomics/EXPLORIS_2/analytic_20240731/20240731_C35806_017_autoQC01.raw p35806/Proteomics/EXPLORIS_2/analytic_20240731/20240731_C35806_017_autoQC01.raw Reading raw file: /srv/www/htdocs//p35806/Proteomics/EXPLORIS_2/analytic_20240731/20240731_C35806_017_autoQC01.raw Plotting chromatograms ... Read 22032 items plotClick: fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-06-07 09:31:46.443536 | timeMax: 2024-08-06 09:31:46.444107 | timeDiff: 5184000.00057077 nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 input timeRange: 7776000 | timeMin: 2024-06-07 07:31:46.444 | timeMax: 2024-08-06 07:31:46.444 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 0 nFacets: 0 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DDA-plot 1: runApp nrow dataFiltered(): 468 using 'ggh4x' package ... NA plotClick: fn has changed to /srv/www/htdocs//p35658/Proteomics/TIMSTOF_1/jonas_20240731_6850_SB0403_SB0804_SB1002/zip/20240731_028_autoQC03dia.d.zip p35658/Proteomics/TIMSTOF_1/jonas_20240731_6850_SB0403_SB0804_SB1002/zip/20240731_028_autoQC03dia.d.zip NA input timeRange: 7776000 | timeMin: 2024-05-08 07:31:48.25065 | timeMax: 2024-08-06 07:31:46.444 | timeDiff: 7775998.19335008 nFacets: 0 nFacets: 1 nrow dataFiltered(): 684 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-05-08 10:32:07.584613 | timeMax: 2024-08-06 07:31:46.444 | timeDiff: 7772378.85938716 nFacets: 0 nFacets: 1 nrow dataFiltered(): 684 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2024-05-08 08:32:07.585 | timeMax: 2024-08-06 07:31:46.444 | timeDiff: 7772378.85899997 nFacets: 0 nFacets: 1 nrow dataFiltered(): 684 using 'ggh4x' package ... Execution halted Warning message: agg could not write to the given file