Listening on http://127.0.0.1:45335 Loading required package: rawDiag Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save plotChargeState output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE saving 'login and webservicepassword' ... output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... resourcesSelected: vals$rawfile: Warning: Error in graphics::plot.new: figure margins too large 130: graphics::plot.new 127: startPNG 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$OrbitrapFun02-plot 1: runApp resourcesSelected: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw vals$rawfile: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw reading index for 20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw... reading index for 20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw... reading index for 20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... reading TIC ... reading TIC ... reading BasePeakIntensity ... reading trailer Ion Injection Time (ms) ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. reading BasePeakIntensity ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. reading TIC ... reading BasePeakIntensity ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. plotTicBasepeak resourcesSelected: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw vals$rawfile: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw plotTicBasepeak output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE saving 'login and webservicepassword' ... output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... resourcesSelected: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw vals$rawfile: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw reading index for 20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw... reading index for 20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw... reading index for 20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... reading TIC ... reading TIC ... reading BasePeakIntensity ... reading trailer Ion Injection Time (ms) ... reading BasePeakIntensity ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. reading TIC ... reading BasePeakIntensity ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. ggplot2::ggsave to file /tmp/RtmpOb0yvC/rawDiag_20240306-095512_plotTicBasepeak.pdf saving 'login and webservicepassword' ... The current plot is available as workunit 300734. Rendering actionButton to link workunit 300734 in B-Fabric. saving 'login and webservicepassword' ... Rendering actionButton to link workunit 300734 in B-Fabric. ggplot2::ggsave to file /tmp/RtmpOb0yvC/rawDiag_20240306-095539_plotTicBasepeak.pdf plotTicBasepeak output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE saving 'login and webservicepassword' ... output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... resourcesSelected: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw vals$rawfile: /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw, /srv/www/htdocs//p34192/Proteomics/LUMOS_2/analytic_20240305/20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw reading index for 20240305_C34192_002_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_1ul.raw... reading index for 20240305_C34192_006_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul_long.raw... reading index for 20240305_C34192_004_S636198_240207_P021_S01_Depletion_THP1_Pos_3h_3_2ul.raw... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... reading TIC ... reading TIC ... reading BasePeakIntensity ... reading trailer Ion Injection Time (ms) ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. reading BasePeakIntensity ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. reading TIC ... reading BasePeakIntensity ... Warning in validate_read.raw(rawrrIndex) : Missing column FTResolution. Warning in validate_read.raw(rawrrIndex) : Missing column LMCorrection. Warning in validate_read.raw(rawrrIndex) : Missing column PrescanMode. ggplot2::ggsave to file /tmp/RtmpOb0yvC/rawDiag_20240306-095830_plotTicBasepeak.pdf saving 'login and webservicepassword' ... The current plot is available as workunit 300735. Rendering actionButton to link workunit 300735 in B-Fabric. saving 'login and webservicepassword' ... Execution halted Warning message: agg could not write to the given file