Listening on http://127.0.0.1:35855 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 lkunz Bfabric query: workflow containerid = 33 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 = 33479 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4702 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4702 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 4702 Selected workflows ids: 4703 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4702 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4703 workflowtemplate step id 243 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 4702 Selected workflows ids: 4703 Selected workflows ids: 4726 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4702 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4703 workflowtemplate step id 243 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 4726 workflowtemplate step id 254 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis Selected workflows ids: 4702 Selected workflows ids: 4703 Selected workflows ids: 4726 Selected workflows ids: 4727 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4702 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4703 workflowtemplate step id 243 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 4726 workflowtemplate step id 254 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 4727 workflowtemplate step id 259 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 60 workflowtemplate name: Proteomics Results saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 4702 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4703 workflowtemplate step id 243 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4726 workflowtemplate step id 254 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4727 workflowtemplate step id 259 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33479.pdf bfabricUpload saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user chiawei Bfabric query: workflow containerid = 33478 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4712 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4712 workflowtemplate step id 240 workflowtemplate step id 231 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 4712 Selected workflows ids: 4713 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4712 workflowtemplate step id 240 workflowtemplate step id 231 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4713 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 4712 Selected workflows ids: 4713 Selected workflows ids: 4728 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4712 workflowtemplate step id 240 workflowtemplate step id 231 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4713 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 = 4728 workflowtemplate step id 250 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis Selected workflows ids: 4712 Selected workflows ids: 4713 Selected workflows ids: 4728 Selected workflows ids: 4729 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4712 workflowtemplate step id 240 workflowtemplate step id 231 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4713 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 = 4728 workflowtemplate step id 250 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 4729 workflowtemplate step id 260 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 60 workflowtemplate name: Proteomics Results saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 4712 workflowtemplate step id 240 workflowtemplate step id 231 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4713 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4728 workflowtemplate step id 250 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4729 workflowtemplate step id 260 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33478.pdf bfabricUpload generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 4712 workflowtemplate step id 240 workflowtemplate step id 231 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4713 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4728 workflowtemplate step id 250 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4729 workflowtemplate step id 260 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33478.pdf bfabricUpload Execution halted