Listening on http://127.0.0.1:43149 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 = 33989 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 5126 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5126 workflowtemplate step id 239 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: 5126 Selected workflows ids: 5134 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5126 workflowtemplate step id 239 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 = 5134 workflowtemplate step id 266 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 5126 Selected workflows ids: 5134 Selected workflows ids: 5141 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5126 workflowtemplate step id 239 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 = 5134 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 = 5141 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 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' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5126 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5134 workflowtemplate step id 266 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5141 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33989.pdf generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5126 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5134 workflowtemplate step id 266 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5141 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33989.pdf bfabricUpload In function read_workflowid Bfabric query: workflow containerid = 33955 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 5126 Selected workflows ids: 5134 Selected workflows ids: 5141 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5126 workflowtemplate step id 239 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 = 5134 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 = 5141 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis Selected workflows ids: 5125 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 227 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 5125 Selected workflows ids: 5135 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 227 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 5135 workflowtemplate step id 266 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 5125 Selected workflows ids: 5135 Selected workflows ids: 5145 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 227 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 5135 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 = 5145 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 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' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 227 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5135 workflowtemplate step id 266 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5145 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33955.pdf generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5125 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 227 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5135 workflowtemplate step id 266 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5145 workflowtemplate step id 254 workflowtemplate step id 254 workflowtemplate step id 273 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33955.pdf bfabricUpload 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 = 33045 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$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 3045 Warning in bfabricShiny::read(bf$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 = 34045 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 5150 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5150 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' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5150 workflowtemplate step id 277 workflowtemplate step id 276 workflowtemplate step id 275 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-34045.pdf generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5150 workflowtemplate step id 277 workflowtemplate step id 276 workflowtemplate step id 275 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-34045.pdf bfabricUpload Execution halted