Listening on http://127.0.0.1:34555
Warning: Error in library: there is no package called 'shinydashboard'
  64: <Anonymous>
  63: stop
  62: library
   1: runApp

Attaching package: 'shinydashboard'

The following object is masked from 'package:graphics':

    box

Loading required package: readr
Loading required package: reshape2
Warning: Error in : '/scratch/DIAQC/qc/dump/output.txt' does not exist.
  141: stop
  140: check_path
  139: <Anonymous>
  138: vroom_
  137: vroom::vroom
  136: readr::read_delim
  135: <reactive:wide> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#65]
  119: wide
  117: <reactive:instruments> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#86]
  101: instruments
   97: renderUI [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#126]
   96: func
   83: renderFunc
   82: output$instrument
    1: runApp
Warning: Error in : '/scratch/DIAQC/qc/dump/output.txt' does not exist.
  139: <Anonymous>
  138: stop
  137: wide
  135: <reactive:long> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#82]
  119: long
  117: <reactive:variables> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#90]
  101: variables
   97: renderUI [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#134]
   96: func
   83: renderFunc
   82: output$variable
    1: runApp
Warning: Error in : '/scratch/DIAQC/qc/dump/output.txt' does not exist.
  141: <Anonymous>
  140: stop
  139: long
  138: <reactive:data> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#95]
  122: data
  117: <reactive:files> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#110]
  101: files
   97: renderUI [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#141]
   96: func
   83: renderFunc
   82: output$file
    1: runApp
Warning: Error in : '/scratch/DIAQC/qc/dump/output.txt' does not exist.
  172: <Anonymous>
  171: stop
  170: data
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#149]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plot1
    1: runApp
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
Warning in predict.lm(fit, data.frame(xc = xx)) :
  prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases
/scratch/DIAQC/qc/dump/p33212/Proteomics/LUMOS_2/tobiasko_20231020/20231020_002_S580219_K562_incl_iRT_Group_1.raw
Warning in normalizePath(rawfile) :
  path[1]="": No such file or directory
Warning: Error in .checkRawFile: File ''  is not available.
  189: stop
  188: .checkRawFile
  187: rawrr::readChromatogram
  186: <reactive:iRTprofileRawDDA> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#40]
  184: .func
  181: contextFunc
  180: env$runWith
  173: ctx$run
  172: self$.updateValue
  170: iRTprofileRawDDA
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#164]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plotiRTDDAChromatograms
    1: runApp
Warning: Error in .checkRawFile: File ''  is not available.
  178: <Anonymous>
  177: stop
  176: iRTprofileRawDDA
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#170]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plotiRTprofiles
    1: runApp
Warning: Error in .checkRawFile: File ''  is not available.
  177: <Anonymous>
  176: stop
  175: iRTprofileRawDDA
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#184]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plotiRTfits
    1: runApp
/scratch/DIAQC/qc/dump/p33212/Proteomics/EXPLORIS_2/tobiasko_20231020/20231020_002_S580219_K562_incl_iRT_Group_1.raw
Warning in normalizePath(rawfile) :
  path[1]="": No such file or directory
Warning: Error in .checkRawFile: File ''  is not available.
  189: stop
  188: .checkRawFile
  187: rawrr::readChromatogram
  186: <reactive:iRTprofileRawDDA> [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#40]
  184: .func
  181: contextFunc
  180: env$runWith
  173: ctx$run
  172: self$.updateValue
  170: iRTprofileRawDDA
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#164]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plotiRTDDAChromatograms
    1: runApp
Warning: Error in .checkRawFile: File ''  is not available.
  178: <Anonymous>
  177: stop
  176: iRTprofileRawDDA
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#170]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plotiRTprofiles
    1: runApp
Warning: Error in .checkRawFile: File ''  is not available.
  177: <Anonymous>
  176: stop
  175: iRTprofileRawDDA
  168: renderPlot [/export/data01/scratch/DIAQC/qc/inst/shiny/fgczmsqc-dashboard/server.R#184]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$plotiRTfits
    1: runApp
/scratch/DIAQC/qc/dump/p33212/Proteomics/EXPLORIS_2/tobiasko_20231020/20231020_002_S580219_K562_incl_iRT_Group_1.raw
/scratch/DIAQC/qc/dump/p33212/Proteomics/EXPLORIS_2/tobiasko_20231020/20231020_004_S580219_K562_incl_iRT_Group_1.raw


Execution halted