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This page was generated on 2023-03-27 11:05:43 -0400 (Mon, 27 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_64R Under development (unstable) (2023-03-16 r83996) -- "Unsuffered Consequences" 4547
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2023-03-15 r83984 ucrt) -- "Unsuffered Consequences" 4308
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2023-03-16 r83985) -- "Unsuffered Consequences" 4300
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

BUILD results for EpiMix on palomino3


To the developers/maintainers of the EpiMix package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/EpiMix.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 631/2195HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EpiMix 1.1.2  (landing page)
Yuanning Zheng
Snapshot Date: 2023-03-26 14:00:09 -0400 (Sun, 26 Mar 2023)
git_url: https://git.bioconductor.org/packages/EpiMix
git_branch: devel
git_last_commit: c702fa7
git_last_commit_date: 2023-02-13 23:28:38 -0400 (Mon, 13 Feb 2023)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: EpiMix
Version: 1.1.2
Command: chmod a+r EpiMix -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data EpiMix
StartedAt: 2023-03-26 18:44:55 -0400 (Sun, 26 Mar 2023)
EndedAt: 2023-03-26 18:52:05 -0400 (Sun, 26 Mar 2023)
EllapsedTime: 429.6 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


* checking for file 'EpiMix/DESCRIPTION' ... OK
* preparing 'EpiMix':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'Methylation_Modeling.Rmd' using rmarkdown
trying URL 'https://egg2.wustl.edu/roadmap/data/byFileType/chromhmmSegmentations/ChmmModels/core_K27ac/jointModel/final/E096_18_core_K27ac_hg38lift_mnemonics.bed.gz'
Content type 'application/x-gzip' length 3835377 bytes (3.7 MB)
==================================================
downloaded 3.7 MB

trying URL 'https://gdac.broadinstitute.org/runs/stddata__latest/data/OV/20160128/gdac.broadinstitute.org_OV.Merge_methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.Level_3.2016012800.0.0.tar.gz'
Content type 'application/x-gzip' length 152968396 bytes (145.9 MB)
==================================================
downloaded 145.9 MB

trying URL 'https://gdac.broadinstitute.org/runs/stddata__latest/data/OV/20160128/gdac.broadinstitute.org_OV.Merge_methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data.Level_3.2016012800.0.0.tar.gz'
Content type 'application/x-gzip' length 51525820 bytes (49.1 MB)
==================================================
downloaded 49.1 MB

trying URL 'https://gdac.broadinstitute.org/runs/stddata__latest/data/OV/20160128/gdac.broadinstitute.org_OV.Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data.Level_3.2016012800.0.0.tar.gz'
Content type 'application/x-gzip' length 36996192 bytes (35.3 MB)
==================================================
downloaded 35.3 MB

trying URL 'https://gdac.broadinstitute.org/runs/stddata__latest/data/OV/20160128/gdac.broadinstitute.org_OV.miRseq_Preprocess.Level_3.2016012800.0.0.tar.gz'
Content type 'application/x-gzip' length 2663096 bytes (2.5 MB)
==================================================
downloaded 2.5 MB

Quitting from lines 433-456 (Methylation_Modeling.Rmd) 
Error: processing vignette 'Methylation_Modeling.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'seqnames': UCSC library operation failed
--- failed re-building 'Methylation_Modeling.Rmd'

SUMMARY: processing the following file failed:
  'Methylation_Modeling.Rmd'

Error: Vignette re-building failed.
Execution halted