##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r maEndToEnd -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data maEndToEnd
###
##############################################################################
##############################################################################


* checking for file 'maEndToEnd/DESCRIPTION' ... OK
* preparing 'maEndToEnd':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'MA-Workflow.Rmd' using rmarkdown
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/164_I_.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/164_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/183_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/183_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2114_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2114_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2209_A.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2209_B.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2255_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2255_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2400_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2400_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2424_A.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2424_B.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/255_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/255_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2826_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2826_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2853_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2853_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2978_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2978_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2987_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2987_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2992_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2992_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2995_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/2995_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/321_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/321_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3222_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3222_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3223_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3223_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3226_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3226_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3233_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3233_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3258_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3258_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3259_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3259_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3262_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3262_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3266_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3266_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3269_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3269_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3271_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3271_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3302_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3302_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3332_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/3332_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/848_A.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/848_B.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/888_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/888_II.CEL'
trying URL 'https://ftp.ebi.ac.uk/biostudies/nfs/E-MTAB-/967/E-MTAB-2967/Files/E-MTAB-2967.sdrf.txt'
Content type 'text/plain; charset=UTF-8' length 22516 bytes (21 KB)
==================================================
downloaded 21 KB


Quitting from lines 400-404 [importCelfiles] (MA-Workflow.Rmd)
Error: processing vignette 'MA-Workflow.Rmd' failed with diagnostics:
These do not exist:
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/164_I_.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/164_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/183_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/183_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2114_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2114_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2209_A.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2209_B.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2255_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2255_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2400_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2400_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2424_A.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2424_B.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/255_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/255_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2826_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2826_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2853_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2853_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2978_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2978_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2987_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2987_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2992_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2992_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2995_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/2995_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/321_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/321_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3222_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3222_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3223_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3223_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3226_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3226_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3233_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3233_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3258_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3258_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3259_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3259_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3262_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3262_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3266_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3266_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3269_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3269_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3271_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3271_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3302_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3302_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3332_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/3332_II.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/848_A.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/848_B.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/888_I.CEL
	 F:\biocbuild\bbs-3.17-workflows\tmpdir\RtmpGAhVpO/888_II.CEL
--- failed re-building 'MA-Workflow.Rmd'

SUMMARY: processing the following file failed:
  'MA-Workflow.Rmd'

Error: Vignette re-building failed.
Execution halted