Listening on http://127.0.0.1:45085 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user mderrico Bfabric query: workflow containerid = 32046 saving 'login and webservicepassword' ... In function read_workflowid In function read_workflowid Request started from user mderrico Bfabric query: workflow containerid = 32046 In function read_workflowid Bfabric query: workflow containerid = 32020 In function read_workflowid Bfabric query: workflow containerid = 320 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 32046 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 3448 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3448 workflowtemplate step id 277 workflowtemplate step id 276 workflowtemplate step id 275 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 61 workflowtemplate name: Analysis procedure: Purified Biomolecules saving 'login and webservicepassword' ... In function read_workflowid In function read_templatefile In function read_templatefile saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user mderrico Bfabric query: workflow containerid = 32020 saving 'login and webservicepassword' ... In function read_workflowid saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user mderrico Bfabric query: workflow containerid = 32020 saving 'login and webservicepassword' ... In function read_workflowid In function read_workflowid Request started from user mderrico Bfabric query: workflow containerid = 32020 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 3427 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3427 workflowtemplate step id 226 workflowtemplate step id 230 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 3427 Selected workflows ids: 3428 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3427 workflowtemplate step id 226 workflowtemplate step id 230 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 3428 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 3427 Selected workflows ids: 3428 Selected workflows ids: 3444 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3427 workflowtemplate step id 226 workflowtemplate step id 230 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 3428 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 3444 workflowtemplate step id 247 workflowtemplate step id 247 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... In function read_workflowid In function read_templatefile In function read_templatefile In function read_templatefile In function read_templatefile In function read_workflowid Request started from user mderrico Bfabric query: workflow containerid = 32046 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 3427 Selected workflows ids: 3428 Selected workflows ids: 3444 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3427 workflowtemplate step id 226 workflowtemplate step id 230 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 3428 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 3444 workflowtemplate step id 247 workflowtemplate step id 247 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user mderrico Bfabric query: workflow containerid = 32 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 320 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 32046 saving 'login and webservicepassword' ... In function read_workflowid In function read_workflowid Request started from user mderrico Bfabric query: workflow containerid = 32046 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 3448 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3448 workflowtemplate step id 277 workflowtemplate step id 276 workflowtemplate step id 275 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 61 workflowtemplate name: Analysis procedure: Purified Biomolecules saving 'login and webservicepassword' ... In function read_workflowid In function read_templatefile generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 3448 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 169: append 168: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#189] 152: read_steptemplateid(input$workflowids[[x]]) 150: FUN [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#278] 149: lapply 148: eventReactiveValueFunc [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#278] 104: report 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#343] 96: func 83: renderFunc 82: output$downloadReportButton 1: runApp In function read_workflowid Request started from user mderrico Bfabric query: workflow containerid = 32046 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 3448 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3448 workflowtemplate step id 277 workflowtemplate step id 276 workflowtemplate step id 275 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 61 workflowtemplate name: Analysis procedure: Purified Biomolecules saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user mderrico Bfabric query: workflow containerid = 3 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 320 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 3204 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 32046 saving 'login and webservicepassword' ... In function read_workflowid saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user schesnov Bfabric query: workflow containerid = 320 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append 120: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 104: read_workflowid 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#135] 96: func 83: renderFunc 82: output$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 32066 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 3451 In function read_steptemplateid Bfabric query: workflowstep workflowid = 3451 workflowtemplate step id 280 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 61 workflowtemplate name: Analysis procedure: Purified Biomolecules saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 3451 workflowtemplate step id 280 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-32066.pdf bfabricUpload Execution halted