Listening on http://127.0.0.1:46659

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
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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: 2024-08-19 14:40:27.862599 | timeMax: 2024-10-18 14:40:27.863196 | timeDiff: 5184000.00059676
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$rawDiag: FALSE
nrow dataFiltered(): 1200
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
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   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1200
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 ...
input timeRange: 7776000 | timeMin: 2024-08-19 12:40:27.863 | timeMax: 2024-10-18 12:40:27.863 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1200
using 'ggh4x' package ...
NA
p36635/Proteomics/EXPLORIS_2/analytic_20241018/20241018_C36635_003_autoQC01.raw
p36635/Proteomics/EXPLORIS_2/analytic_20241018/20241018_C36635_003_autoQC01.raw
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(): 195
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
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 324
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 324
using 'ggh4x' package ...
nrow dataFiltered(): 195
using 'ggh4x' package ...
p36635/Proteomics/EXPLORIS_2/analytic_20241018/20241018_C36635_002_autoQC03dda.raw
p36302/Proteomics/EXPLORIS_2/analytic_20240916/20240916_C36302_016_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p36302/Proteomics/EXPLORIS_2/analytic_20240916/20240916_C36302_016_autoQC03dda.raw
p3000/Proteomics/EXPLORIS_2/lkunz_20240923/20240923_002_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/EXPLORIS_2/lkunz_20240923/20240923_002_autoQC03dda.raw
p3000/Proteomics/EXPLORIS_2/lkunz_20240902/20240902_001_autoQC01.raw
NA
p36229/Proteomics/EXPLORIS_2/analytic_20240905/20240905_C36229_008_autoQC01.raw
NA
p3000/Proteomics/EXPLORIS_2/lkunz_20240930/20240930_003_autoQC03dia.raw
NA
p36445/Proteomics/EXPLORIS_2/analytic_20241001/20241001_C36445_007_autoQC03dia.raw
p36535/Proteomics/EXPLORIS_2/analytic_20241011/20241011_C36535_019_autoQC03dia.raw
Warning in .read(login = login, webservicepassword = webservicepassword,  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  127: vapply
  126: FUN
  125: lapply
  122: .getChildInstruments
  121: .composeInstrumentEvents
  120: <reactive>
  104: bfabricInstrumentEvents
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   83: renderFunc
   82: output$bfabric01-bfabricInstrumentEventsFrequency
    1: runApp
Warning: Error in $: $ operator is invalid for atomic vectors
  106: <Anonymous>
  105: stop
  104: bfabricInstrumentEvents
   97: renderTable
   96: func
   83: renderFunc
   82: output$bfabric01-lastEntryBfabricInstrumentEvents
    1: runApp
Warning: Error in $: $ operator is invalid for atomic vectors
  177: <Anonymous>
  176: stop
  175: bfabricInstrumentEvents
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$bfabric01-plotBfabricInstrumentEvents
    1: runApp
Warning: Error in $: $ operator is invalid for atomic vectors
  177: <Anonymous>
  176: stop
  175: bfabricInstrumentEvents
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
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   83: renderFunc
   82: output$bfabric01-plotBfabricInstrumentEventFrequency
    1: runApp
fn has changed to NA
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Reading /scratch/DIAQC/qc/dump/autoQC01-fit-apex-auc-fwhm.txt ...
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
Warning: Error in if: missing value where TRUE/FALSE needed
  1: runApp
input timeRange: 1209600 | timeMin: 2024-10-11 15:46:18.438881 | timeMax: 2024-10-18 15:46:18.438909 | timeDiff: 604800.000028133
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_1729259178435737000.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_1729255223546511000.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