Listening on http://127.0.0.1:46665 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$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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/LUMOS_1/pgehrig_20230116_RapiFluor_MS/20230428_17_myo_AQC_FASP.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 #rows are 14076 output$tic.basepeak <- renderPlot({ #rows are 14076 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007c5771b6.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007c5771b6.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289685 #rows are 14076 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 14076 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0074ca5286.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpO90Yah/rawDiag-21a0074ca5286.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289686 #rows are 14076 output$download 1... output$scan.frequency <- renderPlot #rows are 14076 output$download 2... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_004_S509065_EPIC-XS-0000405_sample_A3_P3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_002_S509063_EPIC-XS-0000405_sample_A1_P2_testInjection.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_007_S509067_EPIC-XS-0000405_sample_A5_p2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_009_S509069_EPIC-XS-0000405_sample_A7_C2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_008_S509068_EPIC-XS-0000405_sample_A6_P1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_005_S509066_EPIC-XS-0000405_sample_A4_c1.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 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 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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 516165 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 516165 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 516165 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007c68c08.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007c68c08.pdf bfabricShiny::uploadResource ... The current plot is available as workunit ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0073f24b64d.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0073f24b64d.pdf bfabricShiny::uploadResource ... The current plot is available as workunit #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch: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//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_004_S514685_C1_3_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_008_S514688_C2_3_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_013_S514682_S1_3_Sample.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_012_S514681_S1_2_Sample.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_006_S514686_C2_1_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_011_S514680_S1_1_Sample.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_002_S514683_C1_1_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_007_S514687_C2_2_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31864/Proteomics/EXPLORIS_2/analytic_20230602/20230602_C31864_003_S514684_C1_2_Control.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 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 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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode 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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 262828 output$tic.basepeak <- renderPlot({ #rows are 262828 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007a76cc5f.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007a76cc5f.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289687 #rows are 262828 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 262828 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a00738665363.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpO90Yah/rawDiag-21a00738665363.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289688 #rows are 262828 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 262828 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0074688fdf4.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpO90Yah/rawDiag-21a0074688fdf4.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289689 #rows are 262828 output$download 1... Warning: Removed 21 rows containing non-finite values (`stat_smooth()`). #rows are 262828 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0074fc1fb0a.pdf Warning: Removed 21 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/RtmpO90Yah/rawDiag-21a0074fc1fb0a.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289690 #rows are 262828 output$download 1... #rows are 262828 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0077ac0323.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0077ac0323.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289691 #rows are 262828 output$download 1... #rows are 262828 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007a9c81dc.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007a9c81dc.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289692 #rows are 262828 output$download 1... DEBUG renderPlot DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") plotQCs #rows are 262828 output$download 1... #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 76241 output$tic.basepeak <- renderPlot({ #rows are 76241 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0073eff0cc0.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0073eff0cc0.pdf bfabricShiny::uploadResource ... The current plot is available as workunit ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0073e8a2a15.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0073e8a2a15.pdf bfabricShiny::uploadResource ... The current plot is available as workunit #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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. executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_009_S509069_EPIC-XS-0000405_sample_A7_C2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_007_S509067_EPIC-XS-0000405_sample_A5_p2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 216735 output$tic.basepeak <- renderPlot({ #rows are 216735 output$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$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. ggsave to file /tmp/RtmpO90Yah/rawDiag-21a00762a6cc37.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a00762a6cc37.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit output$tic.basepeak <- renderPlot({ #rows are 262828 output$download 2... #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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. executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_007_S509067_EPIC-XS-0000405_sample_A5_p2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_002_S509063_EPIC-XS-0000405_sample_A1_P2_testInjection.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_004_S509065_EPIC-XS-0000405_sample_A3_P3.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 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 #rows are 291350 output$tic.basepeak <- renderPlot({ #rows are 291350 output$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$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007f488f59.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007f488f59.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. 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$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_007_S509067_EPIC-XS-0000405_sample_A5_p2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_004_S509065_EPIC-XS-0000405_sample_A3_P3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_008_S509068_EPIC-XS-0000405_sample_A6_P1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_005_S509066_EPIC-XS-0000405_sample_A4_c1.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 292387 output$tic.basepeak <- renderPlot({ #rows are 292387 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. ggsave to file /tmp/RtmpO90Yah/rawDiag-21a00719bf5bb9.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a00719bf5bb9.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit 289694 #rows are 292387 output$download 1... Warning in shinyStore::updateStore(session, "login", isolate(input$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//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_007_S509067_EPIC-XS-0000405_sample_A5_p2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_002_S509063_EPIC-XS-0000405_sample_A1_P2_testInjection.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_004_S509065_EPIC-XS-0000405_sample_A3_P3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_008_S509068_EPIC-XS-0000405_sample_A6_P1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_005_S509066_EPIC-XS-0000405_sample_A4_c1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_009_S509069_EPIC-XS-0000405_sample_A7_C2.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 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 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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode output$tic.basepeak <- renderPlot({ #rows are 516165 output$download 2... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0075bbc3ae1.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0075bbc3ae1.pdf bfabricShiny::uploadResource ... The current plot is available as workunit ggsave to file /tmp/RtmpO90Yah/rawDiag-21a00718aead10.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a00718aead10.pdf bfabricShiny::uploadResource ... The current plot is available as workunit ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007338d6557.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007338d6557.pdf bfabricShiny::uploadResource ... The current plot is available as workunit ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007400cdefa.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007400cdefa.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit 289695 #rows are 516165 output$download 1... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 516165 output$download 2... #rows are 516165 output$download 2... #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 76241 output$tic.basepeak <- renderPlot({ #rows are 76241 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0075842f67d.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0075842f67d.pdf bfabricShiny::uploadResource ... Warning: Error in observe: object 'resources' not found 1: runApp #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 76241 output$tic.basepeak <- renderPlot({ #rows are 76241 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a0071742033d.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a0071742033d.pdf bfabricShiny::uploadResource ... Warning: Error in observe: object 'resources' not found 1: runApp #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... #rows are 0 /scratch/cpanse/ #rows are 0 #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_003_S509064_EPIC-XS-0000405_sample_A2_C3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31738/Proteomics/EXPLORIS_1/analytic_20230601/20230601_C31738_007_S509067_EPIC-XS-0000405_sample_A5_p2.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 #rows are 143140 #rows are 143140 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a007571de385.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a007571de385.pdf bfabricShiny::uploadResource ... Warning: Error in observe: object 'resources' not found 1: runApp #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/spfammatter_20211110/20211110_007r_S326787_TMT_sample_o25473_IE70_OE100.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 12226 output$tic.basepeak <- renderPlot({ #rows are 12226 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpO90Yah/rawDiag-21a00717c04fd6.pdf generated pdf /tmp/RtmpO90Yah/rawDiag-21a00717c04fd6.pdf bfabricShiny::uploadResource ... Warning: Error in observe: object 'resources' not found 1: runApp