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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd
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* 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 'https://www.ebi.ac.uk/biostudies/files/E-MTAB-2967/E-MTAB-2967.sdrf.txt'
Content type 'text/plain; charset=UTF-8' length 22516 bytes (21 KB)
==================================================
downloaded 21 KB

2025-12-16 13:11:15.766 R[79879:133794076] XType: com.apple.fonts is not accessible.
2025-12-16 13:11:15.766 R[79879:133794076] XType: XTFontStaticRegistry is enabled.

Quitting from MA-Workflow.Rmd:443-464 [qualityControlRawDataPCA]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `svd()`:
! infinite or missing values in 'x'
---
Backtrace:
    ▆
 1. ├─stats::prcomp(t(exp_raw), scale. = FALSE)
 2. └─stats:::prcomp.default(t(exp_raw), scale. = FALSE)
 3.   └─base::svd(x, nu = 0, nv = k)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MA-Workflow.Rmd' failed with diagnostics:
infinite or missing values in 'x'
--- failed re-building ‘MA-Workflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted