Listening on http://127.0.0.1:32985 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 tobiasko 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 = 32787 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4125 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 228 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 4125 Selected workflows ids: 4138 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 228 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4138 workflowtemplate step id 244 workflowtemplate step id 266 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition saving 'login and webservicepassword' ... Selected workflows ids: 4125 Selected workflows ids: 4138 Selected workflows ids: 4158 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 228 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4138 workflowtemplate step id 244 workflowtemplate step id 266 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 4158 workflowtemplate step id 254 workflowtemplate step id 273 workflowtemplate step id 254 workflowtemplate step id 274 workflowtemplate step id 273 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... Selected workflows ids: 4125 Selected workflows ids: 4138 Selected workflows ids: 4158 Selected workflows ids: 4160 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 228 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4138 workflowtemplate step id 244 workflowtemplate step id 266 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 4158 workflowtemplate step id 254 workflowtemplate step id 273 workflowtemplate step id 254 workflowtemplate step id 274 workflowtemplate step id 273 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 4160 workflowtemplate step id 257 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 60 workflowtemplate name: Proteomics Results saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 4125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 228 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4138 workflowtemplate step id 244 workflowtemplate step id 266 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4158 workflowtemplate step id 254 workflowtemplate step id 273 workflowtemplate step id 254 workflowtemplate step id 274 workflowtemplate step id 273 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4160 workflowtemplate step id 257 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-32787.pdf bfabricUpload Execution halted