Tiago Chedraoui Silva
| Snapshot Date: 2024-07-07 14:00 -0400 (Sun, 07 Jul 2024) |
| git_url: https://git.bioconductor.org/packages/ELMER |
| git_branch: devel |
| git_last_commit: 80d0841 |
| git_last_commit_date: 2024-04-30 10:44:07 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-07-08 11:44 -0400 (Mon, 08 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4643 |
| palomino6 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4414 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4442 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4391 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 3833 |
| 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 | ||||
| Package 626/2243 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ELMER 2.29.0 (landing page) Tiago Chedraoui Silva
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino6 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | NA | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the ELMER package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ELMER.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: ELMER |
| Version: 2.29.0 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data ELMER |
| StartedAt: 2024-07-05 22:48:51 -0000 (Fri, 05 Jul 2024) |
| EndedAt: 2024-07-05 23:03:44 -0000 (Fri, 05 Jul 2024) |
| EllapsedTime: 893.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data ELMER
###
##############################################################################
##############################################################################
* checking for file ‘ELMER/DESCRIPTION’ ... OK
* preparing ‘ELMER’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘analysis_data_input.Rmd’ using rmarkdown
Quitting from lines 64-85 [unnamed-chunk-3] (analysis_data_input.Rmd)
Error: processing vignette 'analysis_data_input.Rmd' failed with diagnostics:
lexical error: invalid char in json text.
<?xml version="1.0" ?> <respons
(right here) ------^
--- failed re-building ‘analysis_data_input.Rmd’
--- re-building ‘analysis_diff_meth.Rmd’ using rmarkdown
Quitting from lines 69-83 [unnamed-chunk-2] (analysis_diff_meth.Rmd)
Error: processing vignette 'analysis_diff_meth.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘analysis_diff_meth.Rmd’
--- re-building ‘analysis_get_pair.Rmd’ using rmarkdown
Quitting from lines 109-138 [unnamed-chunk-2] (analysis_get_pair.Rmd)
Error: processing vignette 'analysis_get_pair.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘analysis_get_pair.Rmd’
--- re-building ‘analysis_gui.Rmd’ using rmarkdown
--- finished re-building ‘analysis_gui.Rmd’
--- re-building ‘analysis_motif_enrichment.Rmd’ using rmarkdown
Quitting from lines 68-85 [unnamed-chunk-2] (analysis_motif_enrichment.Rmd)
Error: processing vignette 'analysis_motif_enrichment.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘analysis_motif_enrichment.Rmd’
--- re-building ‘analysis_regulatory_tf.Rmd’ using rmarkdown
Quitting from lines 87-90 [unnamed-chunk-2] (analysis_regulatory_tf.Rmd)
Error: processing vignette 'analysis_regulatory_tf.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘analysis_regulatory_tf.Rmd’
--- re-building ‘index.Rmd’ using rmarkdown
--- finished re-building ‘index.Rmd’
--- re-building ‘input.Rmd’ using rmarkdown
--- finished re-building ‘input.Rmd’
--- re-building ‘pipe.Rmd’ using rmarkdown
--- finished re-building ‘pipe.Rmd’
--- re-building ‘plots_TF.Rmd’ using rmarkdown
Quitting from lines 41-48 [unnamed-chunk-2] (plots_TF.Rmd)
Error: processing vignette 'plots_TF.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘plots_TF.Rmd’
--- re-building ‘plots_heatmap.Rmd’ using rmarkdown
Quitting from lines 33-35 [unnamed-chunk-2] (plots_heatmap.Rmd)
Error: processing vignette 'plots_heatmap.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘plots_heatmap.Rmd’
--- re-building ‘plots_motif_enrichment.Rmd’ using rmarkdown
Quitting from lines 36-40 [unnamed-chunk-2] (plots_motif_enrichment.Rmd)
Error: processing vignette 'plots_motif_enrichment.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘plots_motif_enrichment.Rmd’
--- re-building ‘plots_scatter.Rmd’ using rmarkdown
Quitting from lines 33-35 [unnamed-chunk-2] (plots_scatter.Rmd)
Error: processing vignette 'plots_scatter.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘plots_scatter.Rmd’
--- re-building ‘plots_schematic.Rmd’ using rmarkdown
Quitting from lines 32-35 [unnamed-chunk-2] (plots_schematic.Rmd)
Error: processing vignette 'plots_schematic.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'get': cannot open the connection
--- failed re-building ‘plots_schematic.Rmd’
--- re-building ‘usecase.Rmd’ using rmarkdown
--- finished re-building ‘usecase.Rmd’
SUMMARY: processing the following files failed:
‘analysis_data_input.Rmd’ ‘analysis_diff_meth.Rmd’
‘analysis_get_pair.Rmd’ ‘analysis_motif_enrichment.Rmd’
‘analysis_regulatory_tf.Rmd’ ‘plots_TF.Rmd’ ‘plots_heatmap.Rmd’
‘plots_motif_enrichment.Rmd’ ‘plots_scatter.Rmd’
‘plots_schematic.Rmd’
Error: Vignette re-building failed.
Execution halted