Listening on http://127.0.0.1:46343 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/ Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:0407109F:rsa routines:RSA_padding_check_PKCS1_type_2:pkcs decoding error') Passing through unaltered. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:04065072:rsa routines:rsa_ossl_private_decrypt:padding check failed') Passing through unaltered. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:0407109F:rsa routines:RSA_padding_check_PKCS1_type_2:pkcs decoding error') Passing through unaltered. 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$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$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$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:0407109F:rsa routines:RSA_padding_check_PKCS1_type_2:pkcs decoding error') Passing through unaltered. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:04065072:rsa routines:rsa_ossl_private_decrypt:padding check failed') Passing through unaltered. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:0407109F:rsa routines:RSA_padding_check_PKCS1_type_2:pkcs decoding error') Passing through unaltered. #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$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$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$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_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_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_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_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_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 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 AGCPSMode to PrescanMode 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 442570 output$tic.basepeak <- renderPlot({ #rows are 442570 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. output$tic.basepeak <- renderPlot({ #rows are 442570 output$download 2... #rows are 442570 output$download 2... #rows are 442570 output$download 2... #rows are 442570 output$download 2... #rows are 442570 output$download 2... #rows are 442570 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 442570 output$download 2... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a248de99b4.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a248de99b4.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a2593ce1e7.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a2593ce1e7.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a242429cb2.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a242429cb2.pdf bfabricShiny::uploadResource ... Warning in resources$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 442570 output$download 2... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a2576ba7a1.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a2576ba7a1.pdf bfabricShiny::uploadResource ... Warning in resources$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 442570 output$download 2... #rows are 0 /scratch/cpanse/ ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a233e84323.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a233e84323.pdf bfabricShiny::uploadResource ... Warning in resources$relativepath == input$relativepath : longer object length is not a multiple of shorter object length The current plot is available as workunit #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$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_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_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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode 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 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$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a27d8bc2cb.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a27d8bc2cb.pdf bfabricShiny::uploadResource ... The current plot is available as workunit #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$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_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 #rows are 516165 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$download 2... Warning in shinyStore::updateStore(session, "login", isolate(input$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/Rtmpd0Of6K/rawDiag-f66a272f2d0d6.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a272f2d0d6.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. 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 ... 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 #rows are 516165 output$tic.basepeak <- renderPlot({ #rows are 516165 output$download 2... saving 'login and webservicepassword' ... output$tic.basepeak <- renderPlot({ #rows are 516165 output$download 2... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a2781b021d.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a2781b021d.pdf bfabricShiny::uploadResource ... The current plot is available as workunit ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a254136b.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a254136b.pdf bfabricShiny::uploadResource ... The current plot is available as workunit #rows are 0 /scratch/cpanse/ #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$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_007_S502277_siG_Control_Control_phosphoDIA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_006_S502276_siC_Control_Control_phosphoDIA.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 148112 output$tic.basepeak <- renderPlot({ #rows are 148112 output$download 2... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 58 rows containing missing values (`geom_line()`). #rows are 148112 output$download 2... #rows are 148112 output$download 2... `geom_smooth()` using formula = 'y ~ x' #rows are 148112 output$download 2... #rows are 148112 output$download 2... #rows are 148112 output$download 2... #rows are 148112 output$download 2... #rows are 148112 output$download 2... #rows are 148112 output$download 2... Warning: Computation failed in `stat_binhex()` Caused by error in `if (diff(ybnds) <= 0) ...`: ! missing value where TRUE/FALSE needed #rows are 148112 output$download 2... #rows are 148112 output$download 2... Warning: Computation failed in `stat_binhex()` Caused by error in `if (diff(ybnds) <= 0) ...`: ! missing value where TRUE/FALSE needed #rows are 148112 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$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... #rows are 148112 output$download 2... saving 'login and webservicepassword' ... #rows are 148112 output$download 2... #rows are 148112 output$download 2... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_005_S509645_pRSSU_GFP_3_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_002_S509646_pRSSU_GFP_4_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_007_S509642_WT_withoutGFP_3_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_004_S509644_pRSSU_GFP_2_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_006_S509643_pRSSU_GFP_1_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_003_S509580_WT_withoutGFP_1_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p31773/Proteomics/EXPLORIS_2/analytic_20230601/20230601_C31773_008_S509641_WT_withoutGFP_2_Control.raw qc ... 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 AGCPSMode to PrescanMode 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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 189839 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: `aes_string()` was deprecated in ggplot2 3.0.0. ℹ Please use tidy evaluation idioms with `aes()`. ℹ See also `vignette("ggplot2-in-packages")` for more information. Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. #rows are 148112 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 189839 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a25d7f61cf.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a25d7f61cf.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289646 #rows are 189839 output$download 1... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a21f7a3ed0.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a21f7a3ed0.pdf bfabricShiny::uploadResource ... The current plot is available as workunit output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 189839 output$download 2... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a26b9fa4b0.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a26b9fa4b0.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289647 #rows are 189839 output$download 1... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a26dbc3f2d.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a26dbc3f2d.pdf bfabricShiny::uploadResource ... The current plot is available as workunit #rows are 189839 output$download 2... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a23fa952c4.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a23fa952c4.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289648 #rows are 189839 output$download 1... DEBUG renderPlot plotQCs #rows are 148112 output$download 2... #rows are 189839 output$download 2... Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning in mclapply(rf, function(file) { : all scheduled cores encountered errors in user code Warning: Error in : All inputs to rbind.fill must be data.frames 123: stop 122: plyr::rbind.fill 121: [/usr/local/lib/R/site-library/bfabricShiny/shiny/bfabric_rawDiag/server.R#424] 105: rawXICAUCData 104: exprFunc [/usr/local/lib/R/site-library/bfabricShiny/shiny/bfabric_rawDiag/server.R#860] 103: widgetFunc 102: :: htmlwidgets shinyRenderWidget 101: func 88: renderFunc 87: renderFunc 83: renderFunc 82: output$tableXICAUC 1: runApp saving 'login and webservicepassword' ... Warning: Error in : 'data' must be 2-dimensional (e.g. data frame or matrix) 107: stop 106: 104: processWidget 103: widgetFunc 102: :: htmlwidgets shinyRenderWidget 101: func 88: renderFunc 87: renderFunc 83: renderFunc 82: output$tableInfo 1: runApp ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a22d3ece40.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a22d3ece40.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289649 #rows are 189839 output$download 1... #rows are 189839 output$download 2... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a22e61da6f.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a22e61da6f.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289650 #rows are 189839 output$download 1... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_005_S502279_siG_Iso_Treated_phosphoDDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_004_S502277_siG_Control_Control_phosphoDDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_003_S502276_siC_Control_Control_phosphoDDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_002_S502278_siC_Iso_Treated_phosphoDDA.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 108430 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 108430 output$download 2... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") #rows are 189839 output$download 2... DEBUG renderPlot plotQCs #rows are 189839 output$download 2... #rows are 108430 output$download 2... output$scan.frequency <- renderPlot Warning: Removed 116 rows containing missing values (`geom_line()`). #rows are 108430 output$download 2... #rows are 108430 output$download 2... `geom_smooth()` using formula = 'y ~ x' #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... output$scan.frequency <- renderPlot Warning: Removed 116 rows containing missing values (`geom_line()`). #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... #rows are 108430 output$download 2... output$scan.frequency <- renderPlot Warning: Removed 116 rows containing missing values (`geom_line()`). #rows are 108430 output$download 2... `geom_smooth()` using formula = 'y ~ x' #rows are 108430 output$download 2... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_009_S502278_siC_Iso_Treated_proteome.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_010_S502276_siC_Control_Control_proteome.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_011_S502277_siG_Control_Control_proteome.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p29033/Proteomics/QEXACTIVEHF_2/radhika_20230426/20230426_012_S502279_siG_Iso_Treated_proteome.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode `geom_smooth()` using formula = 'y ~ x' #rows are 227417 output$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: Error in .read: B-Fabric errorreport: Invalid login or password. Could not login. 163: stop 162: .read 161: bfabricShiny::readPages 160: eventReactiveValueFunc 116: bfabricConnectionWorking 114: 98: empdegree 97: renderUI 96: func 83: renderFunc 82: output$bfabric8-employee 1: runApp Warning: Error in .read: B-Fabric errorreport: Invalid login or password. Could not login. 163: stop 162: .read 161: bfabricShiny::readPages 160: eventReactiveValueFunc 116: bfabricConnectionWorking 114: 98: empdegree 97: renderUI 96: func 83: renderFunc 82: output$bfabric8-employee 1: runApp Warning: Error in .read: B-Fabric errorreport: Invalid login or password. Could not login. 163: stop 162: .read 161: bfabricShiny::readPages 160: eventReactiveValueFunc 116: bfabricConnectionWorking 114: 98: empdegree 97: renderUI 96: func 83: renderFunc 82: output$bfabric8-employee 1: runApp Warning: Error in .read: B-Fabric errorreport: Invalid login or password. Could not login. 163: stop 162: .read 161: bfabricShiny::readPages 160: eventReactiveValueFunc 116: bfabricConnectionWorking 114: 98: empdegree 97: renderUI 96: func 83: renderFunc 82: output$bfabric8-employee 1: runApp Warning: Error in .read: B-Fabric errorreport: Invalid login or password. Could not login. 163: stop 162: .read 161: bfabricShiny::readPages 160: eventReactiveValueFunc 116: bfabricConnectionWorking 114: 98: empdegree 97: renderUI 96: func 83: renderFunc 82: output$bfabric8-employee 1: runApp output$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. output$tic.basepeak <- renderPlot({ #rows are 516165 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 516165 output$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$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/QEXACTIVEHFX_1/lkunz_20191022_TMT_frac_test/20191022_02_HEK_TMT.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 39916 output$tic.basepeak <- renderPlot({ #rows are 39916 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpd0Of6K/rawDiag-f66a27f12668b.pdf generated pdf /tmp/Rtmpd0Of6K/rawDiag-f66a27f12668b.pdf bfabricShiny::uploadResource ... The current plot is available as workunit 289672 #rows are 39916 output$download 1... saving 'login and webservicepassword' ... DEBUG renderPlot plotQCs #rows are 189839 output$download 2... Execution halted