Listening on http://127.0.0.1:41415 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 chiawei Bfabric query: workflow containerid = 3400 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$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 34006 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 5186 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5186 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 5186 Selected workflows ids: 5133 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5186 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 5133 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 118: append 117: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#189] 101: read_steptemplateid(L[[i]]) 99: FUN [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#224] 98: lapply 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#222] 96: func 83: renderFunc 82: output$textTemplate 1: runApp Selected workflows ids: 5186 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5186 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 5186 Selected workflows ids: 5187 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5186 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 = 5187 workflowtemplate step id 250 workflowtemplate step id 291 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... Selected workflows ids: 5186 Selected workflows ids: 5187 Selected workflows ids: 5188 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5186 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 = 5187 workflowtemplate step id 250 workflowtemplate step id 291 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 5188 workflowtemplate step id 260 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' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5186 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5187 workflowtemplate step id 250 workflowtemplate step id 291 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5188 workflowtemplate step id 260 workflowtemplate step id 256 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-34006.pdf bfabricUpload saving 'login and webservicepassword' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user roschi 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$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 33 Warning in bfabricShiny::read(bf$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 = 33939 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 5112 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 5112 Selected workflows ids: 5139 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 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 = 5139 workflowtemplate step id 243 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 5112 Selected workflows ids: 5139 Selected workflows ids: 5156 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 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 = 5139 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 = 5156 workflowtemplate step id 254 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 = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5139 workflowtemplate step id 243 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5156 workflowtemplate step id 254 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33939.pdf bfabricUpload generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5139 workflowtemplate step id 243 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5156 workflowtemplate step id 254 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33939.pdf bfabricUpload generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5139 workflowtemplate step id 243 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5156 workflowtemplate step id 254 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33939.pdf bfabricUpload generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 5112 workflowtemplate step id 272 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5139 workflowtemplate step id 243 In function read_steptemplateid Bfabric query: workflowstep workflowid = 5156 workflowtemplate step id 254 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33939.pdf bfabricUpload Execution halted