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Attaching package: 'shinydashboard'

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Loading required package: ggnewscale
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
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input timeRange: 7776000 | timeMin: 2024-09-09 15:08:26.18142 | timeMax: 2024-11-08 14:08:26.182129 | timeDiff: 5184000.0007093
Loading required package: bfabricShiny

Attaching package: 'bfabricShiny'

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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
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input timeRange: 7776000 | timeMin: 2024-09-09 15:08:31.368024 | timeMax: 2024-11-08 14:08:31.36874 | timeDiff: 5184000.00071597
nFacets: 4
Warning: Error in if: argument is of length zero
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nFacets: 4
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vals$rawrr: FALSE
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vals$rawrr: FALSE
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nrow dataFiltered(): 1184
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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input timeRange: 7776000 | timeMin: 2024-09-09 13:08:26.181 | timeMax: 2024-11-08 13:08:26.182 | timeDiff: 5184000.00099993
nFacets: 4
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input timeRange: 7776000 | timeMin: 2024-09-09 13:08:31.368 | timeMax: 2024-11-08 13:08:31.369 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1184
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nrow dataFiltered(): 1184
Loading required package: ggh4x
Loading required package: ggplot2

Attaching package: 'ggh4x'

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using 'ggh4x' package ...
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using 'ggh4x' package ...
p36764/Proteomics/EXPLORIS_2/analytic_20241106/20241106_C36764_001_autoQC01.raw
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nrow dataFiltered(): 1296
using 'ggh4x' package ...
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nrow dataFiltered(): 768
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
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Warning in file(con, "w") :
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Warning: Error in file: cannot open the connection
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
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input timeRange: 7776000 | timeMin: 2024-09-09 16:14:43.768171 | timeMax: 2024-11-08 15:14:43.768764 | timeDiff: 5184000.00059342
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vals$rawrr: FALSE
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nrow dataFiltered(): 1184
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nrow dataFiltered(): 1184
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-09-09 14:14:43.768 | timeMax: 2024-11-08 14:14:43.769 | timeDiff: 5184000.00100017
nFacets: 4
nrow dataFiltered(): 1184
using 'ggh4x' package ...
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nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 36 rows containing missing values or values outside the scale
range (`geom_point()`).
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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_1731075280031068000.json': Permission denied
Warning: Error in file: cannot open the connection
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
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input timeRange: 7776000 | timeMin: 2024-09-12 17:35:01.940653 | timeMax: 2024-11-11 16:35:01.94123 | timeDiff: 5184000.00057769
nFacets: 4
Warning: Error in if: argument is of length zero
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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: 2024-09-12 15:35:01.94065 | timeMax: 2024-11-11 15:35:01.94123 | timeDiff: 5184000.00058007
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
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input timeRange: 7776000 | timeMin: 2024-09-12 17:48:57.286213 | timeMax: 2024-11-11 16:48:57.286795 | timeDiff: 5184000.0005827
nFacets: 4
Warning: Error in if: argument is of length zero
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nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1136
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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input timeRange: 7776000 | timeMin: 2024-09-12 15:48:57.286 | timeMax: 2024-11-11 15:48:57.287 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1136
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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nrow dataFiltered(): 1136
using 'ggh4x' package ...
Reading /scratch/DIAQC/qc/dump/comet.RData ...
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
Warning in file(con, "w") :
  cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1731339298496734000.json': Permission denied
Warning: Error in file: cannot open the connection
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nFacets: 4
nrow dataFiltered(): 704
using 'ggh4x' package ...
Warning: Removed 36 rows containing missing values or values outside the scale
range (`geom_point()`).
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range (`geom_line()`).
p36853/Proteomics/QEXACTIVE_1/analytic_20241108/20241108_C36853_008_autoQC01.raw
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nFacets: 4
nrow dataFiltered(): 1136
using 'ggh4x' package ...
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p36535/Proteomics/EXPLORIS_2/analytic_20241011/20241011_C36535_001_autoQC01.raw
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p36383/Proteomics/EXPLORIS_2/analytic_20241004/20241004_C36383_012_autoQC01.raw
nFacets: 1
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vals$rawrr: FALSE
vals$rawDiag: FALSE
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vals$rawDiag: FALSE
nrow dataFiltered(): 130
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    1: runApp
nrow dataFiltered(): 360
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 360
using 'ggh4x' package ...
nrow dataFiltered(): 130
using 'ggh4x' package ...
NA
p3000/Proteomics/EXPLORIS_2/lkunz_20241007/20241007_002_autoQC03dda.raw
NA
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nFacets: 1
nrow dataFiltered(): 195
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 306
using 'ggh4x' package ...
NA
p3000/Proteomics/EXPLORIS_1/lkunz_20241007/20241007_002_autoQC03dda.raw
Warning in file(con, "w") :
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Warning: Error in file: cannot open the connection
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   1: runApp
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
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input timeRange: 7776000 | timeMin: 2024-09-12 21:04:32.368382 | timeMax: 2024-11-11 20:04:32.368962 | timeDiff: 5184000.00057983
nFacets: 4
Warning: Error in if: argument is of length zero
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nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1072
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 1072
using 'ggh4x' package ...
Warning: Removed 4 rows containing missing values or values outside the scale
range (`geom_point()`).
input timeRange: 7776000 | timeMin: 2024-09-12 19:04:32.368 | timeMax: 2024-11-11 19:04:32.369 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1072
using 'ggh4x' package ...
Warning: Removed 4 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning in file(con, "w") :
  cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1731351868927538000.json': Permission denied
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
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  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
fn has changed to NA
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
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   1: runApp
Warning: Error in if: missing value where TRUE/FALSE needed
  1: runApp
input timeRange: 1209600 | timeMin: 2024-11-05 08:30:30.493966 | timeMax: 2024-11-12 08:30:30.49401 | timeDiff: 604800.000043869
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
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  82: output$__autoQC01__-ui
   1: runApp
Warning in file(con, "w") :
  cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1731396630488290000.json': Permission denied
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
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  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
fn has changed to NA
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
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   1: runApp
input timeRange: 7776000 | timeMin: 2024-09-13 10:03:27.772461 | timeMax: 2024-11-12 09:03:27.773054 | timeDiff: 5184000.00059319
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
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   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1120
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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  169: ggplot2FUN
  168: renderPlot
  166: func
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    1: runApp
input timeRange: 7776000 | timeMin: 2024-09-13 08:03:27.772 | timeMax: 2024-11-12 08:03:27.773 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1120
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
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   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1120
using 'ggh4x' package ...
nrow dataFiltered(): 1120
using 'ggh4x' package ...
Error in .make_numeric_version(x, strict, .standard_regexps()$valid_numeric_version) : 
  invalid non-character version specification 'x' (type: double)
Warning in file(con, "w") :
  cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1731398604296861000.json': Permission denied
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
fn has changed to NA
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-09-13 15:32:26.251545 | timeMax: 2024-11-12 14:32:26.252136 | timeDiff: 5184000.00059175
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
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  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$rawDiag: FALSE
nrow dataFiltered(): 143
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
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  112: <reactive:plotObj>
   96: drawReactive
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   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 378
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
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   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 378
using 'ggh4x' package ...
nrow dataFiltered(): 143
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-09-13 13:32:26.25154 | timeMax: 2024-11-12 13:32:26.25214 | timeDiff: 5184000.00059986
nFacets: 1
nrow dataFiltered(): 143
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 378
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-09-13 13:32:26.252 | timeMax: 2024-11-12 13:32:26.252 | timeDiff: 5184000
nFacets: 1
nrow dataFiltered(): 143
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 378
using 'ggh4x' package ...
NA
p3000/Proteomics/EXPLORIS_2/lkunz_20241111/20241111_003_autoQC03dia.raw
NA
p3000/Proteomics/EXPLORIS_2/lkunz_20241111/20241111_003_autoQC03dia.raw
p3000/Proteomics/EXPLORIS_2/lkunz_20241111/20241111_002_autoQC03dda.raw
Warning in file(con, "w") :
  cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1731418342649593000.json': Permission denied
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-09-14 09:58:43.862186 | timeMax: 2024-11-13 08:58:43.863531 | timeDiff: 5184000.0013442
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$rawDiag: FALSE
nrow dataFiltered(): 156
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 396
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
input timeRange: 7776000 | timeMin: 2024-09-14 07:58:43.86219 | timeMax: 2024-11-13 07:58:43.86353 | timeDiff: 5184000.00133991
nFacets: 1
nrow dataFiltered(): 156
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nFacets: 1
nrow dataFiltered(): 396
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
input timeRange: 7776000 | timeMin: 2024-09-14 07:58:43.862 | timeMax: 2024-11-13 07:58:43.864 | timeDiff: 5184000.00200009
nFacets: 1
nrow dataFiltered(): 156
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nFacets: 1
nrow dataFiltered(): 396
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 396
using 'ggh4x' package ...
nrow dataFiltered(): 156
using 'ggh4x' package ...
p3000/Proteomics/EXPLORIS_2/lkunz_20241111/20241112_002_autoQC03dda.raw
nrow dataFiltered(): 156
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 156
using 'ggh4x' package ...
p3000/Proteomics/EXPLORIS_2/lkunz_20241111/20241112_002_autoQC03dda.raw
NA
input timeRange: 31536000 | timeMin: 2024-09-14 07:58:43.862 | timeMax: 2024-11-13 08:59:12.207219 | timeDiff: 5184028.34521866
nFacets: 1
nrow dataFiltered(): 156
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 396
using 'ggh4x' package ...
nrow dataFiltered(): 156
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-09-14 07:58:43.862 | timeMax: 2024-11-13 07:59:12.207 | timeDiff: 5184028.34500003
nFacets: 1
nrow dataFiltered(): 156
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 396
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-01-22 07:59:14.775 | timeMax: 2024-11-13 07:59:12.207 | timeDiff: 25574397.4319999
nFacets: 1
nrow dataFiltered(): 1326
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 1962
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_1731484716587169000.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_1731071300970162000.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


Execution halted