Listening on http://127.0.0.1:44783
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 schesnov
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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 34
Warning in bfabricShiny::read(bf$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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 346
Warning in bfabricShiny::read(bf$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 = 34647
saving 'login and webservicepassword' ...
In function read_templatefile
Bfabric query: dataset id
Selected workflows ids: 5668

In function read_steptemplateid
Bfabric query: workflowstep workflowid = 5668
workflowtemplate step id  277 
workflowtemplate step id  279 

In function read_workflowtemplate
Bfabric query: workflowtemplate workflowtemplateid = 61
workflowtemplate name: Analysis procedure: Purified Biomolecules

In function read_workflowid
Bfabric query: workflow containerid = 346
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_templatefile
Warning: Error in $: $ operator is invalid for atomic vectors
  123: <Anonymous>
  122: stop
  121: read_workflowid
  114: <reactive:read_templatefile> [/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
saving 'login and webservicepassword' ...
In function read_workflowid
Bfabric query: workflow containerid = 34615
In function read_templatefile
Bfabric query: dataset id
Selected workflows ids: 5668

In function read_steptemplateid
Bfabric query: workflowstep workflowid = 5668
workflowtemplate step id  277 
workflowtemplate step id  279 

In function read_workflowtemplate
Bfabric query: workflowtemplate workflowtemplateid = 61
workflowtemplate name: Analysis procedure: Purified Biomolecules

In function read_workflowid
Bfabric query: workflow containerid = 3461
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_templatefile
Warning: Error in $: $ operator is invalid for atomic vectors
  123: <Anonymous>
  122: stop
  121: read_workflowid
  114: <reactive:read_templatefile> [/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$textTemplate
    1: runApp
In function read_templatefile
In function read_workflowid
Bfabric query: workflow containerid = 346
Warning in bfabricShiny::read(bf$login(), bf$webservicepassword(), posturl = posturl(),  :
  query failed.
Warning: Error in $: $ operator is invalid for atomic vectors
  138: append [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125]
  137: <reactive:read_workflowid> [/usr/local/lib/R/site-library/oreport/shiny/order_report/server.R#125]
  121: read_workflowid
  114: <reactive:read_templatefile> [/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
Warning: Error in $: $ operator is invalid for atomic vectors
  106: <Anonymous>
  105: stop
  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
In function read_workflowid
Bfabric query: workflow containerid = 34647
Bfabric query: dataset id
Selected workflows ids: 5668

In function read_steptemplateid
Bfabric query: workflowstep workflowid = 5668
workflowtemplate step id  277 
workflowtemplate step id  279 

In function read_workflowtemplate
Bfabric query: workflowtemplate workflowtemplateid = 61
workflowtemplate name: Analysis procedure: Purified Biomolecules

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 = 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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 34
Warning in bfabricShiny::read(bf$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$workflow
    1: runApp
In function read_workflowid
Bfabric query: workflow containerid = 346
Warning in bfabricShiny::read(bf$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 = 34647
saving 'login and webservicepassword' ...
In function read_templatefile
Bfabric query: dataset id
Selected workflows ids: 5668

In function read_steptemplateid
Bfabric query: workflowstep workflowid = 5668
workflowtemplate step id  277 
workflowtemplate step id  279 

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 = 5668
workflowtemplate step id  277 
workflowtemplate step id  279 



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


Output created: fgcz_order_report-34647.pdf
bfabricUpload


Execution halted