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### Running command:
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###   chmod a+r weitrix -R && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data weitrix
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* checking for file 'weitrix/DESCRIPTION' ... OK
* preparing 'weitrix':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'V1_overview.Rmd' using rmarkdown
--- finished re-building 'V1_overview.Rmd'

--- re-building 'V2_tail_length.Rmd' using rmarkdown
-- Attaching packages --------------------------------------- tidyverse 1.3.0 --
v ggplot2 3.3.2     v purrr   0.3.4
v tibble  3.0.4     v dplyr   1.0.2
v tidyr   1.1.2     v stringr 1.4.0
v readr   1.4.0     v forcats 0.5.0
-- Conflicts ------------------------------------------ tidyverse_conflicts() --
x dplyr::filter() masks stats::filter()
x dplyr::lag()    masks stats::lag()

Attaching package: 'reshape2'

The following object is masked from 'package:tidyr':

    smiths

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:dplyr':

    combine, intersect, setdiff, union

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which, which.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:dplyr':

    first, rename

The following object is masked from 'package:tidyr':

    expand

The following object is masked from 'package:base':

    expand.grid

Loading required package: IRanges

Attaching package: 'IRanges'

The following objects are masked from 'package:dplyr':

    collapse, desc, slice

The following object is masked from 'package:purrr':

    reduce

The following object is masked from 'package:grDevices':

    windows

Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: DelayedArray
Loading required package: matrixStats

Attaching package: 'matrixStats'

The following objects are masked from 'package:Biobase':

    anyMissing, rowMedians

The following object is masked from 'package:dplyr':

    count


Attaching package: 'DelayedArray'

The following objects are masked from 'package:matrixStats':

    colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges

The following object is masked from 'package:purrr':

    simplify

The following objects are masked from 'package:base':

    aperm, apply, rowsum


Attaching package: 'limma'

The following object is masked from 'package:BiocGenerics':

    plotMA

Loading required package: AnnotationDbi

Attaching package: 'AnnotationDbi'

The following object is masked from 'package:dplyr':

    select



-- Column specification --------------------------------------------------------
cols(
  .default = col_double(),
  Feature = col_character()
)
i Use `spec()` for the full column specifications.


-- Column specification --------------------------------------------------------
cols(
  .default = col_double(),
  Feature = col_character()
)
i Use `spec()` for the full column specifications.

'select()' returned 1:1 mapping between keys and columns
Quitting from lines 102-103 (V2_tail_length.Rmd) 
Quitting from lines 102-103 (V2_tail_length.Rmd) 
Error: processing vignette 'V2_tail_length.Rmd' failed with diagnostics:
error writing to connection
--- failed re-building 'V2_tail_length.Rmd'

--- re-building 'V3_shift.Rmd' using rmarkdown

-- Column specification ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
cols(
  name = col_character(),
  chromosome = col_character(),
  strand = col_double(),
  pos = col_double(),
  relation = col_character(),
  gene_name = col_character()
)


-- Column specification ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
cols(
  .default = col_double(),
  name = col_character()
)
i Use `spec()` for the full column specifications.


-- Column specification ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
cols(
  name = col_character(),
  symbol = col_character(),
  biotype = col_character(),
  product = col_character()
)

Error in serialize(data, node$con) : error writing to connection
Calls: <Anonymous> ... .send_to -> <Anonymous> -> sendData.SOCKnode -> serialize
Finding 10 components
Quitting from lines 104-105 (V3_shift.Rmd) 
Quitting from lines 104-105 (V3_shift.Rmd) 
Error: processing vignette 'V3_shift.Rmd' failed with diagnostics:
error writing to connection
--- failed re-building 'V3_shift.Rmd'

--- re-building 'V4_airway.Rmd' using rmarkdown
Loading required package: ensembldb
Loading required package: GenomicFeatures
Loading required package: AnnotationFilter

Attaching package: 'ensembldb'

The following object is masked from 'package:dplyr':

    filter

The following object is masked from 'package:stats':

    filter

Error in serialize(data, node$con) : error writing to connection
Calls: <Anonymous> ... .send_to -> <Anonymous> -> sendData.SOCKnode -> serialize
Finding 6 components
Quitting from lines 94-96 (V4_airway.Rmd) 
Quitting from lines 94-96 (V4_airway.Rmd) 
Error: processing vignette 'V4_airway.Rmd' failed with diagnostics:
error writing to connection
--- failed re-building 'V4_airway.Rmd'

SUMMARY: processing the following files failed:
  'V2_tail_length.Rmd' 'V3_shift.Rmd' 'V4_airway.Rmd'

Error: Vignette re-building failed.
Execution halted
Error in serialize(data, node$con) : error writing to connection
Calls: <Anonymous> ... .send_to -> <Anonymous> -> sendData.SOCKnode -> serialize