Listening on http://127.0.0.1:45561 Loading required package: rawDiag Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save plotInjectionTime output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE saving 'login and webservicepassword' ... output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... plotTicBasepeak resourcesSelected: /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_004_S691822_MS1_bMLH1wt_pep_Group_2.raw, /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_003_S692194_MS1_bMLH1mut_Group_3.raw, /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_002_S691821_MS1_bMLH1wt_Group_1.raw, /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_005_S691820_MS1_beads_Control.raw vals$rawfile: /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_004_S691822_MS1_bMLH1wt_pep_Group_2.raw, /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_003_S692194_MS1_bMLH1mut_Group_3.raw, /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_002_S691821_MS1_bMLH1wt_Group_1.raw, /srv/www/htdocs//p35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_005_S691820_MS1_beads_Control.raw reading index for 20240530_C35202_002_S691821_MS1_bMLH1wt_Group_1.raw... reading index for 20240530_C35202_004_S691822_MS1_bMLH1wt_pep_Group_2.raw... reading index for 20240530_C35202_003_S692194_MS1_bMLH1mut_Group_3.raw... reading index for 20240530_C35202_005_S691820_MS1_beads_Control.raw... saving 'login and webservicepassword' ... list(list(`_classname` = "workunit", `_id` = 304131, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 35202), created = "2024-06-03 09:54:18", createdby = "tobiasko", description = "input files:\np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_004_S691822_MS1_bMLH1wt_pep_Group_2.raw\np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_003_S692194_MS1_bMLH1mut_Group_3.raw \np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_002_S691821_MS1_bMLH1wt_Group_1.raw \np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_005_S691820_MS1_beads_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.13.0.\nSystem information: Linux, 5.10.0-28-amd64, #1 SMP Debian 5.10.209-2 (2024-01-31), 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` = 2511032), list(`_classname` = "resource", `_id` = 2511031), list(`_classname` = "resource", `_id` = 2511030), list(`_classname` = "resource", `_id` = 2511029)), modified = "2024-06-03 09:54:18", modifiedby = "tobiasko", name = "plotTicBasepeak", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2511184, container = list(`_classname` = "order", `_id` = 35202), created = "2024-06-03 09:54:18", createdby = "tobiasko", filechecksum = "2785561ff2f1b22357a5faa33801b42f", junk = "false", modified = "2024-06-03 09:54:18", modifiedby = "tobiasko", name = "WU304131-20240603-0954-rawDiag.pdf", relativepath = "container_35202/workunit_304131/WU304131-20240603-0954-rawDiag.pdf", size = "50093", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_35202/workunit_304131/WU304131-20240603-0954-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_35202/workunit_304131/WU304131-20240603-0954-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 304131))) The current plot is available as workunit 304131. Rendering actionButton to link workunit 304131 in B-Fabric. saving 'login and webservicepassword' ... Warning: Error in : Discrete value supplied to continuous scale 188: stop 187: train_continuous 186: self$range$train 185: train 184: scales[[i]][[method]] 183: FUN 182: lapply 181: FUN 180: lapply 179: scale_apply 178: train_scales 177: self$facet$train_scales 176: train_position 175: layout$train_position 174: ggplot_build.ggplot 172: print.ggplot 167: func 165: f 164: Reduce 155: do 154: hybrid_chain 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$OrbitrapFun02-plot 1: runApp plotLockMassCorrection Rendering actionButton to link workunit 304131 in B-Fabric. plotInjectionTime list(list(`_classname` = "workunit", `_id` = 304132, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 35202), created = "2024-06-03 09:55:15", createdby = "tobiasko", description = "input files:\np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_004_S691822_MS1_bMLH1wt_pep_Group_2.raw\np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_003_S692194_MS1_bMLH1mut_Group_3.raw \np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_002_S691821_MS1_bMLH1wt_Group_1.raw \np35202/Proteomics/LUMOS_2/analytic_20240530/20240530_C35202_005_S691820_MS1_beads_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.13.0.\nSystem information: Linux, 5.10.0-28-amd64, #1 SMP Debian 5.10.209-2 (2024-01-31), 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` = 2511032), list(`_classname` = "resource", `_id` = 2511031), list(`_classname` = "resource", `_id` = 2511030), list(`_classname` = "resource", `_id` = 2511029)), modified = "2024-06-03 09:55:15", modifiedby = "tobiasko", name = "plotInjectionTime", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2511187, container = list(`_classname` = "order", `_id` = 35202), created = "2024-06-03 09:55:16", createdby = "tobiasko", filechecksum = "ff2660c8a603646b0d901d12887a2ba3", junk = "false", modified = "2024-06-03 09:55:16", modifiedby = "tobiasko", name = "WU304132-20240603-0955-rawDiag.pdf", relativepath = "container_35202/workunit_304132/WU304132-20240603-0955-rawDiag.pdf", size = "406834", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_35202/workunit_304132/WU304132-20240603-0955-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_35202/workunit_304132/WU304132-20240603-0955-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 304132))) The current plot is available as workunit 304132. Rendering actionButton to link workunit 304132 in B-Fabric. plotChargeState output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE saving 'login and webservicepassword' ... output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... resourcesSelected: /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240603/20240603_004_autoQC03dda.raw, /srv/www/htdocs//p34994/Proteomics/EXPLORIS_1/roschi_20240515_SQ_analysis/20240515_069_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240527/20240527_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/lkunz_20240506/20240506_003_autoQC03dda.raw vals$rawfile: /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240603/20240603_004_autoQC03dda.raw, /srv/www/htdocs//p34994/Proteomics/EXPLORIS_1/roschi_20240515_SQ_analysis/20240515_069_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240527/20240527_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/lkunz_20240506/20240506_003_autoQC03dda.raw reading index for 20240603_004_autoQC03dda.raw... reading index for 20240524_004_autoQC03dda.raw... reading index for 20240527_004_autoQC03dda.raw... reading index for 20240506_003_autoQC03dda.raw... reading index for 20240515_069_autoQC03dda.raw... plotCycleLoad `geom_smooth()` using formula = 'y ~ x' `geom_smooth()` using formula = 'y ~ x' plotInjectionTime resourcesSelected: /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240603/20240603_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240527/20240527_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/lkunz_20240506/20240506_003_autoQC03dda.raw vals$rawfile: /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240603/20240603_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240527/20240527_004_autoQC03dda.raw, /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/lkunz_20240506/20240506_003_autoQC03dda.raw reading index for 20240524_004_autoQC03dda.raw... reading index for 20240603_004_autoQC03dda.raw... reading index for 20240527_004_autoQC03dda.raw... reading index for 20240506_003_autoQC03dda.raw... plotScanTime plotInjectionTime plotTicBasepeak plotCycleLoad `geom_smooth()` using formula = 'y ~ x' plotCycleTime plotInjectionTime plotLockMassCorrection plotMassDistribution plotMzDistribution plotTicBasepeak plotScanTime plotChargeState output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE saving 'login and webservicepassword' ... output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... resourcesSelected: /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw vals$rawfile: /srv/www/htdocs//p3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw reading index for 20240524_004_autoQC03dda.raw... plotTicBasepeak saving 'login and webservicepassword' ... list(list(`_classname` = "workunit", `_id` = 304163, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "project", `_id` = 3000), created = "2024-06-03 16:38:46", createdby = "cpanse", description = "input files:\np3000/Proteomics/EXPLORIS_1/antdit_20240524/20240524_004_autoQC03dda.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.13.0.\nSystem information: Linux, 5.10.0-28-amd64, #1 SMP Debian 5.10.209-2 (2024-01-31), 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` = 2511388)), modified = "2024-06-03 16:38:46", modifiedby = "cpanse", name = "plotTicBasepeak", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2511392, container = list(`_classname` = "project", `_id` = 3000), created = "2024-06-03 16:38:46", createdby = "cpanse", filechecksum = "cbe7d9715208a5fd4c588668b8d97952", junk = "false", modified = "2024-06-03 16:38:46", modifiedby = "cpanse", name = "WU304163-20240603-1638-rawDiag.pdf", relativepath = "container_3000/workunit_304163/WU304163-20240603-1638-rawDiag.pdf", size = "73699", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_3000/workunit_304163/WU304163-20240603-1638-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_3000/workunit_304163/WU304163-20240603-1638-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 304163))) The current plot is available as workunit 304163. Rendering actionButton to link workunit 304163 in B-Fabric. saving 'login and webservicepassword' ... Execution halted