Listening on http://127.0.0.1:42557 Loading required package: bfabricShiny Attaching package: ‘bfabricShiny’ The following object is masked from ‘package:base’: save Warning in normalizePath("~") : path[1]="/var/www": No such file or directory /scratch/cpanse/ saving 'login and webservicepassword' ... Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. saving 'login and webservicepassword' ... Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning: Error in PKI.encrypt: could not find function "PKI.encrypt" 46: shinyStore::updateStore 45: observe 44: 1: runApp Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning: Error in PKI.encrypt: could not find function "PKI.encrypt" 46: shinyStore::updateStore 45: observe 44: 1: runApp Warning in normalizePath("~") : path[1]="/var/www": No such file or directory saving 'login and webservicepassword' ... Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. saving 'login and webservicepassword' ... Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... Warning: Error in loadNamespace: there is no package called ‘plyr’ 149: 148: stop 144: loadNamespace 143: eventReactiveValueFunc [/usr/local/lib/R/site-library/rawDiag/shiny/bfabric_rawDiag/server.R#451] 99: rawData 97: renderUI [/usr/local/lib/R/site-library/rawDiag/shiny/bfabric_rawDiag/server.R#839] 96: func 83: renderFunc 82: output$PDF 1: runApp executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/spfammatter_20211110/20211110_006_S326787_TMT_sample_o25473_IE100_OE100.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/spfammatter_20211110/20211110_007r_S326787_TMT_sample_o25473_IE70_OE100.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode Loading required package: PKI Warning in normalizePath("~") : path[1]="/var/www": No such file or directory already uploaded to bfabric saving 'login and webservicepassword' ... Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. saving 'login and webservicepassword' ... Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. Warning in bfabricShiny::read(input$login, input$webservicepassword, endpoint = "user", : query failed. 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_2/cpanse_20221208_DIA_DDA/20221017_003_M130429_pool_f2_A.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/LUMOS_2/cpanse_20221208_DIA_DDA/20221012_006_EVP16_Treated.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/LUMOS_2/cpanse_20221208_DIA_DDA/20221017_002_M130429_pool_f1_A.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/LUMOS_2/cpanse_20221208_DIA_DDA/20221017_010_M130219_pool_f3_A.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/LUMOS_2/cpanse_20221208_DIA_DDA/20221012_021_EVP4_Treated.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p3000/Proteomics/LUMOS_2/cpanse_20221208_DIA_DDA/20221017_005_M130429_pool_f4_A.raw qc ... missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values Warning in file(con, "r") : cannot open file 'help.md': No such file or directory Warning: Error in file: cannot open the connection 115: file 114: readLines 113: xfun::read_utf8 112: renderMarkdown 111: markdown::markdownToHTML 110: includeMarkdown 97: renderUI [/usr/local/lib/R/site-library/rawDiag/shiny/bfabric_rawDiag/server.R#84] 96: func 83: renderFunc 82: output$tabs 1: runApp Warning in normalizePath("~") : path[1]="/var/www": No such file or directory Warning in file(con, "r") : cannot open file 'help.md': No such file or directory Warning: Error in file: cannot open the connection 115: file 114: readLines 113: xfun::read_utf8 112: renderMarkdown 111: markdown::markdownToHTML 110: includeMarkdown 97: renderUI [/usr/local/lib/R/site-library/rawDiag/shiny/bfabric_rawDiag/server.R#84] 96: func 83: renderFunc 82: output$tabs 1: runApp already uploaded to bfabric /scratch/cpanse/