Listening on http://127.0.0.1:34639
Loading required package: bfabricShiny

Attaching package: 'bfabricShiny'

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

    save

Loading required package: protViz
Loading required package: rawDiag
Loading required package: parallel
Loading required package: tidyr
Loading required package: rmarkdown
Loading required package: base64enc
Loading required package: ggplot2
Loading required package: lattice
Loading required package: PKI


saving 'login and webservicepassword' ...
output$employee <- renderUI({
read bfabricposturl http://localhost:5000/.
Warning in .read(login = login, webservicepassword = webservicepassword,  :
  query failed.
bfabricConnectionWorking FALSE
output$employee <- renderUI({
bfabricConnectionWorking TRUE
'empdegree' found.
saving 'login and webservicepassword' ...
saving 'login and webservicepassword' ...
saving 'login and webservicepassword' ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/EXPLORIS_2/lkunz_20220819/20220819_004_S408771_Kuppfer_KF_200_enriched_DDA.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/EXPLORIS_2/lkunz_20220819/20220819_005_S408772_Kuppfer_KF_50_enriched_DDA.raw qc ...
missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMmZCorrectionppm to LMCorrection
renamed AGCPSMode to PrescanMode
missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMmZCorrectionppm to LMCorrection
renamed AGCPSMode to PrescanMode
output$tic.basepeak <- renderPlot({
Warning: Error in rawData: could not find function "rawData"
  169: nrow
  168: renderPlot [/usr/local/lib/R/site-library/bfabricShiny/shiny/bfabric_rawDiag/server.R#679]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$tic.basepeak
    1: runApp
output$scan.frequency <- renderPlot
Warning: Error in rawData: could not find function "rawData"
  169: nrow
  168: renderPlot [/usr/local/lib/R/site-library/bfabricShiny/shiny/bfabric_rawDiag/server.R#693]
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$scan.frequency
    1: runApp