Listening on http://127.0.0.1:43611
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 wuethrich
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: <reactive:read_workflowid> [/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 [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125]
  120: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 358
Warning in bfabricShiny::read(bf$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: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 3586
Warning in bfabricShiny::read(bf$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: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 35867
Warning in bfabricShiny::read(bf$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: <reactive:read_workflowid> [/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$workflow
    1: runApp
saving 'login and webservicepassword' ...
In function read_workflowid
read bfabricposturl https://fgcz-c-072.uzh.ch:5000/.
Request started from user wuethrich
Bfabric query: workflow containerid = 3
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  121: append
  120: <reactive:read_workflowid> [/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: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 358
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  121: append
  120: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 35867
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  121: append
  120: <reactive:read_workflowid> [/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$workflow
    1: runApp
saving 'login and webservicepassword' ...
In function read_workflowid
In function read_workflowid
Request started from user wuethrich
Bfabric query: workflow containerid = 35867
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  121: append
  120: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
read bfabricposturl https://fgcz-c-072.uzh.ch:5000/.
Request started from user wuethrich
Bfabric query: workflow containerid = 3
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  121: append
  120: <reactive:read_workflowid> [/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: <reactive:read_workflowid> [/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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 358
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  121: append
  120: <reactive:read_workflowid> [/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 = 35867
saving 'login and webservicepassword' ...
In function read_templatefile
Bfabric query: dataset id
Selected workflows ids: 6716

In function read_steptemplateid
Bfabric query: workflowstep workflowid = 6716
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 = 6716
workflowtemplate step id  276 
workflowtemplate step id  275 



processing file: report.Rmd
output file: report.knit.md


Output created: fgcz_order_report-35867.pdf
bfabricUpload


Execution halted