Listening on http://127.0.0.1:44447 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 = 33589 saving 'login and webservicepassword' ... In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4783 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4783 workflowtemplate step id 239 workflowtemplate step id 271 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 4783 Selected workflows ids: 4784 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4783 workflowtemplate step id 239 workflowtemplate step id 271 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4784 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 4783 Selected workflows ids: 4784 Selected workflows ids: 4810 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4783 workflowtemplate step id 239 workflowtemplate step id 271 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4784 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 = 4810 workflowtemplate step id 274 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 = 4783 workflowtemplate step id 239 workflowtemplate step id 271 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4784 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4810 workflowtemplate step id 274 workflowtemplate step id 273 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33589.pdf bfabricUpload In function read_workflowid Bfabric query: workflow containerid = 33552 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4783 Selected workflows ids: 4784 Selected workflows ids: 4810 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4783 workflowtemplate step id 239 workflowtemplate step id 271 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_steptemplateid Bfabric query: workflowstep workflowid = 4784 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 = 4810 workflowtemplate step id 274 workflowtemplate step id 273 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_workflowid Bfabric query: workflow containerid = 3355 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 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_templatefile Warning: Error in $: $ operator is invalid for atomic vectors 123: 122: stop 121: read_workflowid 114: [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#89] 98: read_templatefile 97: renderUI [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#216] 96: func 83: renderFunc 82: output$textTemplate 1: runApp In function read_workflowid Bfabric query: workflow containerid = 33552 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4766 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 workflowtemplate step id 227 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 4766 Selected workflows ids: 4767 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 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 = 4767 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 4766 Selected workflows ids: 4767 Selected workflows ids: 4803 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 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 = 4767 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 = 4803 workflowtemplate step id 274 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' ... Selected workflows ids: 4766 Selected workflows ids: 4767 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 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 = 4767 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 4766 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 workflowtemplate step id 227 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation In function read_workflowid Bfabric query: workflow containerid = 3355 Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(), : query failed. Warning: Error in $: $ operator is invalid for atomic vectors 121: append [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125] 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 = 33552 In function read_templatefile Bfabric query: dataset id Selected workflows ids: 4766 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 workflowtemplate step id 227 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 57 workflowtemplate name: Proteomics Sample Preparation Selected workflows ids: 4766 Selected workflows ids: 4767 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 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 = 4767 workflowtemplate step id 244 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 58 workflowtemplate name: Proteomics Data acquisition Selected workflows ids: 4766 Selected workflows ids: 4767 Selected workflows ids: 4803 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 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 = 4767 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 = 4803 workflowtemplate step id 274 workflowtemplate step id 273 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis Selected workflows ids: 4766 Selected workflows ids: 4767 Selected workflows ids: 4803 Selected workflows ids: 4817 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 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 = 4767 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 = 4803 workflowtemplate step id 274 workflowtemplate step id 273 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 59 workflowtemplate name: Proteomics Data analysis In function read_steptemplateid Bfabric query: workflowstep workflowid = 4817 workflowtemplate step id 259 workflowtemplate step id 257 In function read_workflowtemplate Bfabric query: workflowtemplate workflowtemplateid = 60 workflowtemplate name: Proteomics Results saving 'login and webservicepassword' ... generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 workflowtemplate step id 227 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4767 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4803 workflowtemplate step id 274 workflowtemplate step id 273 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4817 workflowtemplate step id 259 workflowtemplate step id 257 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33552.pdf generateReport In function read_steptemplateid Bfabric query: workflowstep workflowid = 4766 workflowtemplate step id 239 workflowtemplate step id 227 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4767 workflowtemplate step id 244 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4803 workflowtemplate step id 274 workflowtemplate step id 273 In function read_steptemplateid Bfabric query: workflowstep workflowid = 4817 workflowtemplate step id 259 workflowtemplate step id 257 processing file: report.Rmd output file: report.knit.md Output created: fgcz_order_report-33552.pdf bfabricUpload Execution halted