Listening on http://127.0.0.1:41079 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 roschi Bfabric query: workflow containerid = 3527 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 = 35272 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 6284 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 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: 6284 Selected workflows ids: 6296 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 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 = 6296 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition saving 'login and webservicepassword' ... Selected workflows ids: 6284 Selected workflows ids: 6296 Selected workflows ids: 6304 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 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 = 6296 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 = 6304 workflowtemplate step id 248 workflowtemplate step id 254 workflowtemplate step id 247 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6296 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6304 workflowtemplate step id 248 workflowtemplate step id 254 workflowtemplate step id 247 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-35272.pdf bfabricUpload generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 workflowtemplate step id 239 workflowtemplate step id 225 workflowtemplate step id 239 workflowtemplate step id 232 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6296 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6304 workflowtemplate step id 248 workflowtemplate step id 254 workflowtemplate step id 247 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-35272.pdf bfabricUpload saving 'login and webservicepassword' ... In function read_workflowid In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user roschi Bfabric query: workflow containerid = 35555 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 6561 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6561 workflowtemplate step id 240 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 workflowtemplate step id 234 workflowtemplate step id 224 workflowtemplate step id 239 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 6561 Selected workflows ids: 6562 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6561 workflowtemplate step id 240 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 workflowtemplate step id 234 workflowtemplate step id 224 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 = 6562 workflowtemplate step id 269 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition saving 'login and webservicepassword' ... Selected workflows ids: 6561 Selected workflows ids: 6562 Selected workflows ids: 6563 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6561 workflowtemplate step id 240 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 workflowtemplate step id 234 workflowtemplate step id 224 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 = 6562 workflowtemplate step id 269 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 6563 workflowtemplate step id 274 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... Selected workflows ids: 6561 Selected workflows ids: 6562 Selected workflows ids: 6563 Selected workflows ids: 6564 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6561 workflowtemplate step id 240 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 workflowtemplate step id 234 workflowtemplate step id 224 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 = 6562 workflowtemplate step id 269 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition In function read_steptemplateid Bfabric query: workflowstep workflowid = 6563 workflowtemplate step id 274 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 6564 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' ... In function read_workflowid read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Request started from user schesnov Bfabric query: workflow containerid = 35669 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 6575 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6575 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 = 6575 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-35669.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$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 35 Warning in bfabricShiny::read(bf$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$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 352 Warning in bfabricShiny::read(bf$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$workflow 1: runApp In function read_workflowid Bfabric query: workflow containerid = 3527 Warning in bfabricShiny::read(bf$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 = 35272 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 6284 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 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: 6284 Selected workflows ids: 6296 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 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 = 6296 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition saving 'login and webservicepassword' ... Selected workflows ids: 6284 Selected workflows ids: 6296 Selected workflows ids: 6304 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6284 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 = 6296 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 = 6304 workflowtemplate step id 248 workflowtemplate step id 254 workflowtemplate step id 247 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 6561 workflowtemplate step id 240 workflowtemplate step id 239 workflowtemplate step id 240 workflowtemplate step id 231 workflowtemplate step id 234 workflowtemplate step id 224 workflowtemplate step id 239 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6562 workflowtemplate step id 269 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6563 workflowtemplate step id 274 In function read_steptemplateid Bfabric query: workflowstep workflowid = 6564 workflowtemplate step id 256 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-35555.pdf bfabricUpload Execution halted