Listening on http://127.0.0.1:40087 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. 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//p32744/Proteomics/LUMOS_2/analytic_20230904/20230904_C32744_004_S556583_GFP_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32744/Proteomics/LUMOS_2/analytic_20230904/20230904_C32744_005_S556584_INTS6_Group_1.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 #rows are 187024 output$tic.basepeak <- renderPlot({ #rows are 187024 output$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/RtmpmSaSxh/rawDiag-1b81de16857fcc.pdf generated pdf /tmp/RtmpmSaSxh/rawDiag-1b81de16857fcc.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293177, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32744), created = "2023-09-05 13:43:46", createdby = "spfammatter", deletable = "true", description = "input files:\np32744/Proteomics/LUMOS_2/analytic_20230904/20230904_C32744_005_S556584_INTS6_Group_1.raw\np32744/Proteomics/LUMOS_2/analytic_20230904/20230904_C32744_004_S556583_GFP_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2354399), list(`_classname` = "resource", `_id` = 2354398)), modified = "2023-09-05 13:43:46", modifiedby = "spfammatter", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2354401, container = list(`_classname` = "order", `_id` = 32744), created = "2023-09-05 13:43:48", createdby = "spfammatter", deletable = "true", filechecksum = "0ae4981694c1a342499333fdde2aa184", junk = "false", modified = "2023-09-05 13:43:48", modifiedby = "spfammatter", name = "WU293177-20230905-1343-rawDiag.pdf", relativepath = "container_32744/workunit_293177/WU293177-20230905-1343-rawDiag.pdf", size = "167991", status = "available", storage = list( `_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32744/workunit_293177/WU293177-20230905-1343-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32744/workunit_293177/WU293177-20230905-1343-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293177))) The current plot is available as workunit 293177 #rows are 187024 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$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. output$scan.frequency <- renderPlot Warning: Removed 58 rows containing missing values (`geom_line()`). #rows are 187024 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 187024 output$download 2... ggsave to file /tmp/RtmpmSaSxh/rawDiag-1b81de762ed393.pdf generated pdf /tmp/RtmpmSaSxh/rawDiag-1b81de762ed393.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293178, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32744), created = "2023-09-05 13:51:39", createdby = "spfammatter", deletable = "true", description = "input files:\np32744/Proteomics/LUMOS_2/analytic_20230904/20230904_C32744_005_S556584_INTS6_Group_1.raw\np32744/Proteomics/LUMOS_2/analytic_20230904/20230904_C32744_004_S556583_GFP_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2354399), list(`_classname` = "resource", `_id` = 2354398)), modified = "2023-09-05 13:51:39", modifiedby = "spfammatter", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2354405, container = list(`_classname` = "order", `_id` = 32744), created = "2023-09-05 13:51:40", createdby = "spfammatter", deletable = "true", filechecksum = "1a777da5fd96177be62e820c8e59b9dc", junk = "false", modified = "2023-09-05 13:51:40", modifiedby = "spfammatter", name = "WU293178-20230905-1351-rawDiag.pdf", relativepath = "container_32744/workunit_293178/WU293178-20230905-1351-rawDiag.pdf", size = "167991", status = "available", storage = list( `_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32744/workunit_293178/WU293178-20230905-1351-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32744/workunit_293178/WU293178-20230905-1351-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293178))) The current plot is available as workunit 293178 #rows are 187024 output$download 1... output$tic.basepeak <- renderPlot({ #rows are 187024 output$download 2... Execution halted