Listening on http://127.0.0.1:43505 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 spfammatter Bfabric query: workflow containerid = 35930 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 6776 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6776 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 224 workflowtemplate step id 239 workflowtemplate step id 232 workflowtemplate step id 231 workflowtemplate step id 239 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 6776 Selected workflows ids: 6783 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6776 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 224 workflowtemplate step id 239 workflowtemplate step id 232 workflowtemplate step id 231 workflowtemplate step id 239 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 6783 workflowtemplate step id 244 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 6776 Selected workflows ids: 6783 Selected workflows ids: 6804 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6776 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 224 workflowtemplate step id 239 workflowtemplate step id 232 workflowtemplate step id 231 workflowtemplate step id 239 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 6783 workflowtemplate step id 244 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 = 6804 workflowtemplate step id 250 workflowtemplate step id 247 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... Selected workflows ids: 6776 Selected workflows ids: 6783 Selected workflows ids: 6804 Selected workflows ids: 6805 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6776 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 224 workflowtemplate step id 239 workflowtemplate step id 232 workflowtemplate step id 231 workflowtemplate step id 239 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 6783 workflowtemplate step id 244 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 = 6804 workflowtemplate step id 250 workflowtemplate step id 247 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 6805 workflowtemplate step id 256 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' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 6776 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 224 workflowtemplate step id 239 workflowtemplate step id 232 workflowtemplate step id 231 workflowtemplate step id 239 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6783 workflowtemplate step id 244 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6804 workflowtemplate step id 250 workflowtemplate step id 247 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6805 workflowtemplate step id 256 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-35930.pdf bfabricUpload 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 = 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 = 35923 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 6779 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6779 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 224 workflowtemplate step id 233 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: 6779 Selected workflows ids: 6789 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6779 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 224 workflowtemplate step id 233 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 = 6789 workflowtemplate step id 243 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 6779 Selected workflows ids: 6789 Selected workflows ids: 6798 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6779 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 224 workflowtemplate step id 233 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 = 6789 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 = 6798 workflowtemplate step id 254 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis Selected workflows ids: 6779 Selected workflows ids: 6789 Selected workflows ids: 6798 Selected workflows ids: 6803 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6779 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 224 workflowtemplate step id 233 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 = 6789 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 = 6798 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 = 6803 workflowtemplate step id 256 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 = 6779 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 224 workflowtemplate step id 233 workflowtemplate step id 239 workflowtemplate step id 232 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6789 workflowtemplate step id 243 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6798 workflowtemplate step id 254 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6803 workflowtemplate step id 256 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-35923.pdf bfabricUpload Execution halted