Listening on http://127.0.0.1:42585 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: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_002_S193756_K-562_N_A_tMS2org.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_004_S193756_K-562_N_A_DIA30k.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_008_S193756_K-562_N_A_tMS2new.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_007_S193756_K-562_N_A_DIA30k.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_003_S193756_K-562_N_A_DIA15k.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_005_S193756_K-562_N_A_tMS2new.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_010_S193756_K-562_N_AtMS2org.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_009_S193756_K-562_N_A_DIA15k.raw vals$rawfile: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_002_S193756_K-562_N_A_tMS2org.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_004_S193756_K-562_N_A_DIA30k.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_008_S193756_K-562_N_A_tMS2new.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_007_S193756_K-562_N_A_DIA30k.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_003_S193756_K-562_N_A_DIA15k.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_005_S193756_K-562_N_A_tMS2new.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_010_S193756_K-562_N_AtMS2org.raw, /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_009_S193756_K-562_N_A_DIA15k.raw reading index for 20231113_002_S193756_K-562_N_A_tMS2org.raw... reading index for 20231113_004_S193756_K-562_N_A_DIA30k.raw... reading index for 20231113_008_S193756_K-562_N_A_tMS2new.raw... reading index for 20231113_007_S193756_K-562_N_A_DIA30k.raw... reading index for 20231113_003_S193756_K-562_N_A_DIA15k.raw... reading index for 20231113_005_S193756_K-562_N_A_tMS2new.raw... reading index for 20231113_010_S193756_K-562_N_AtMS2org.raw... reading index for 20231113_009_S193756_K-562_N_A_DIA15k.raw... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... reading trailer Ion Injection Time (ms) ... reading trailer Ion Injection Time (ms) ... reading trailer Ion Injection Time (ms) ... reading trailer Ion Injection Time (ms) ... reading trailer Ion Injection Time (ms) ... reading trailer Ion Injection Time (ms) ... determining ElapsedScanTimesec ... reading trailer AGC ... determining ElapsedScanTimesec ... reading trailer AGC ... reading TIC ... reading TIC ... reading TIC ... reading TIC ... reading TIC ... reading TIC ... reading BasePeakIntensity ... reading BasePeakIntensity ... reading BasePeakIntensity ... 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 BasePeakIntensity ... 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. 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 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. 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 trailer Ion Injection Time (ms) ... reading TIC ... reading TIC ... reading BasePeakIntensity ... 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. plotLockMassCorrection plotCycleTime plotMassDistribution plotPrecursorHeatmap plotScanTime Warning: Error in dplyr::mutate: ℹ In argument: `transient = dplyr::case_when(...)`. Caused by error in `dplyr::case_when()`: ! Failed to evaluate the left-hand side of formula 1. Caused by error: ! object 'FTResolution' not found 202: 201: signalCondition 200: signal_abort 199: abort 198: 197: signalCondition 196: signal_abort 195: abort 194: h 193: .handleSimpleError 192: eval_tidy 190: case_formula_evaluate 189: dplyr::case_when 188: eval 187: mask$eval_all_mutate 186: mutate_col 184: mutate_cols 183: mutate.data.frame 181: .calcTransient 170: plotScanTime 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$OrbitrapFun02-plot 1: runApp plotTicBasepeak ggplot2::ggsave to file /tmp/RtmpeHum5s/rawDiag_20231218-150418_plotTicBasepeak.pdf saving 'login and webservicepassword' ... The current plot is available as workunit 297946. Rendering actionButton to link workunit 297946 in B-Fabric. saving 'login and webservicepassword' ... ggplot2::ggsave to file /tmp/RtmpeHum5s/rawDiag_20231218-150455_plotTicBasepeak.pdf The current plot is available as workunit 297947. Rendering actionButton to link workunit 297947 in B-Fabric. plotTicBasepeak output$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$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... resourcesSelected: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_002_S193756_K-562_N_A_tMS2org.raw vals$rawfile: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/roschi_20231113_DIA_K562/20231113_002_S193756_K-562_N_A_tMS2org.raw reading index for 20231113_002_S193756_K-562_N_A_tMS2org.raw... 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.