Listening on http://127.0.0.1:40499
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



#rows are 0
/scratch/cpanse/
saving 'login and webservicepassword' ...
output$employee <- renderUI({
read bfabricposturl https://fgcz-c-072.uzh.ch:5002/.
Warning in .read(login = login, webservicepassword = webservicepassword,  :
  query failed.
bfabricConnectionWorking FALSE
output$employee <- renderUI({
bfabricConnectionWorking TRUE
'empdegree' found.
Warning in shinyStore::updateStore(session, "login", isolate(input$login),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "project", isolate(input$project),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "login", isolate(input$login),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "project", isolate(input$project),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "login", isolate(input$login),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "project", isolate(input$project),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "login", isolate(input$login),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "project", isolate(input$project),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "login", isolate(input$login),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "project", isolate(input$project),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_008_S487644_S05_C7_2_Group_5_rep.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_016_S487650_S11_C7_2_Group_15.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_014_S487645_S06_C7_2_spike_Group_6.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_010_S487648_S09_C7_1_Group_9_rep.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_005_S487647_S08_Negative_spike_Group_8.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_003_S487641_S02_Negative_spike_Group_2.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_011_S487649_S10_C7_1_spike_Group_10_rep.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_015_S487651_S12_C7_2_spike_Group_20.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_013_S487643_S04_C7_1_spike_Group_4.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_004_S487640_S01_Negative_Group_1.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_002_S487646_S07_Negative_Group_7.raw qc ...
executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31265/Proteomics/FUSION_2/analytic_20230405/20230405_C31265_009_S487642_S03_C7_1_Group_3_rep.raw qc ...
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
copied AGC to AGCMode
calculated PrescanMode values
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
renamed LMCorrectionppm to LMCorrection
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
copied AGC to AGCMode
calculated PrescanMode values
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode
NA values replaced in MasterScanNumber 
renamed LMCorrectionppm to LMCorrection
copied AGC to AGCMode
calculated PrescanMode values
#rows are 280415
DEBUG queryMass
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: 'readXICs' is deprecated.
Use 'rawrr::readChromatogram' instead.
See help("Deprecated")
Warning: `aes_string()` was deprecated in ggplot2 3.0.0.
ℹ Please use tidy evaluation ideoms with `aes()`
Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0.
ℹ Please use `linewidth` instead.
#rows are 280415
output$download 2...
Warning in shinyStore::updateStore(session, "login", isolate(input$login),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.
Warning in shinyStore::updateStore(session, "project", isolate(input$project),  :
  Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user.


Execution halted