Bioconductor Single Package Builder - Build History

Snapshot Date:

URL: https://git.bioconductor.org/packages/singIST

Last Changed Rev: / Revision:

Last Changed Date:

Hostname	OS /Arch	BUILD	CHECK	BUILD BIN	POST-PROCESSING
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)/x86_64	ERROR	skipped	skipped	skipped

nebbiolo2 Summary

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Package: singIST

Version: 0.99.6

RVersion: 4.5

BiocVersion: 3.22

BuildCommand: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data singIST

BuildTime: 9 minutes 54.18 seconds

CheckCommand:

CheckTime:

BuildBinCommand:

BuildBinTime:

PackageFileSize: -1.00 KiB

BuildID:: singIST_20251110195617

PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: singIST. Starting Build package.

PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 0. Installing package status: 0. Build Package status: 1.

nebbiolo2 BUILD SRC output

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===============================

 R CMD BUILD

===============================

* checking for file ‘singIST/DESCRIPTION’ ... OK
* preparing ‘singIST’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘singISTvignette.Rmd’ using rmarkdown

Quitting from singISTvignette.Rmd:253-266 [unnamed-chunk-8]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `FUN()`:
! cannot open file '/home/biocbuild/bbs-3.22-bioc/R/site-library/limma/R/limma.rdb': No such file or directory
---
Backtrace:
     ▆
  1. └─singIST::singISTrecapitulations(oxa_org, superpathways_fit[[1]])
  2.   └─singIST::biological_link_function(object, model_object, ...)
  3.     └─singIST::diff_expressed(object, ...)
  4.       └─base::apply(combinations, 1, apply_function)
  5.         └─singIST (local) FUN(newX[, i], ...)
  6.           ├─Seurat::FindMarkers(...)
  7.           └─Seurat:::FindMarkers.Seurat(...)
  8.             ├─Seurat::FindMarkers(...)
  9.             └─Seurat:::FindMarkers.Assay(...)
 10.               ├─Seurat::FindMarkers(...)
 11.               └─Seurat:::FindMarkers.default(...)
 12.                 └─Seurat:::PerformDE(...)
 13.                   └─Seurat:::WilcoxDETest(...)
 14.                     └─pbapply (local) my.sapply(...)
 15.                       └─pbapply::pblapply(X = X, FUN = FUN, ..., cl = cl)
 16.                         └─base::lapply(X, FUN, ...)
 17.                           └─Seurat (local) FUN(X[[i]], ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'singISTvignette.Rmd' failed with diagnostics:
cannot open file '/home/biocbuild/bbs-3.22-bioc/R/site-library/limma/R/limma.rdb': No such file or directory
--- failed re-building ‘singISTvignette.Rmd’

SUMMARY: processing the following file failed:
  ‘singISTvignette.Rmd’

Error: Vignette re-building failed.
Execution halted

nebbiolo2 CHECK output

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nebbiolo2 BUILD BIN output

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