Bioconductor Single Package Builder - Build History

Snapshot Date:

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

Last Changed Rev: / Revision:

Last Changed Date:

Hostname	OS /Arch	BUILD	CHECK	BUILD BIN	POST-PROCESSING
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)/x86_64	ERROR	skipped	skipped	skipped

nebbiolo1 Summary

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Package: SMTrackR

Version: 0.99.2

RVersion: 4.6

BiocVersion: 3.23

BuildCommand: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data SMTrackR

BuildTime: 1 minutes 36.30 seconds

CheckCommand:

CheckTime:

BuildBinCommand:

BuildBinTime:

PackageFileSize: -1.00 KiB

BuildID:: SMTrackR_20260126123248

PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: SMTrackR. 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.

nebbiolo1 BUILD SRC output

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

 R CMD BUILD

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

* checking for file ‘SMTrackR/DESCRIPTION’ ... OK
* preparing ‘SMTrackR’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘reference_manual.rmd’ using rmarkdown
trying URL 'https://api.genome.ucsc.edu/getData/track?hubUrl=https://usegalaxy.org/api/datasets/f9cad7b01a472135f6860d3104863246/display?to_ext=txt;genome=mm10;track=8cell;chrom=chr5;start=113847750;end=113847780'

Quitting from reference_manual.rmd:46-57 [plot psuedo-bulk scNOMe-seq data]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! cannot open URL 'https://api.genome.ucsc.edu/getData/track?hubUrl=https://usegalaxy.org/api/datasets/f9cad7b01a472135f6860d3104863246/display?to_ext=txt;genome=mm10;track=8cell;chrom=chr5;start=113847750;end=113847780'
---
Backtrace:
    ▆
 1. └─SMTrackR::plotFootprints(...)
 2.   └─SMTrackR:::downloadJson(...)
 3.     └─SMTrackR:::retrieve_json(...)
 4.       └─utils::download.file(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'reference_manual.rmd' failed with diagnostics:
cannot open URL 'https://api.genome.ucsc.edu/getData/track?hubUrl=https://usegalaxy.org/api/datasets/f9cad7b01a472135f6860d3104863246/display?to_ext=txt;genome=mm10;track=8cell;chrom=chr5;start=113847750;end=113847780'
--- failed re-building ‘reference_manual.rmd’

SUMMARY: processing the following file failed:
  ‘reference_manual.rmd’

Error: Vignette re-building failed.
Execution halted

nebbiolo1 CHECK output

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nebbiolo1 BUILD BIN output

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