Wubing Zhang
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/MAGeCKFlute |
| Branch: RELEASE_3_11 |
| Last Commit: 3df188c |
| Last Changed Date: 2020-04-27 15:12:41 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:55:03 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE MAGeCKFlute PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 976/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| MAGeCKFlute 1.8.0 Wubing Zhang
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | [ ERROR ] | skipped | |||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | ERROR | skipped | skipped |
| Package: MAGeCKFlute |
| Version: 1.8.0 |
| Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data MAGeCKFlute |
| StartedAt: 2020-10-16 20:07:27 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 20:14:39 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 432.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data MAGeCKFlute
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* checking for file ‘MAGeCKFlute/DESCRIPTION’ ... OK
* preparing ‘MAGeCKFlute’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MAGeCKFlute.Rmd’ using rmarkdown
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Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.
The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
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MAGeCKFlute is an open source software package. Users are required to formally
cite the original MAGeCKFlute paper in publications.
Quitting from lines 213-215 (MAGeCKFlute.Rmd)
Error: processing vignette 'MAGeCKFlute.Rmd' failed with diagnostics:
cannot read from connection
--- failed re-building ‘MAGeCKFlute.Rmd’
--- re-building ‘MAGeCKFlute_enrichment.Rmd’ using rmarkdown
2020-10-16 20:09:36 # Running Pathway+GOBP enrichment analysis
288 genes are mapped ...
2020-10-16 20:10:36 # Running Pathway+GOBP enrichment analysis
288 genes are mapped ...
2020-10-16 20:10:51 # Running Pathway+GOBP enrichment analysis
5949 genes are mapped ...
preparing geneSet collections...
GSEA analysis...
leading edge analysis...
done...
2020-10-16 20:11:46 # Running KEGG+REACTOME enrichment analysis
257 genes are mapped ...
2020-10-16 20:11:51 # Running KEGG enrichment analysis
163 genes are mapped ...
2020-10-16 20:11:52 # Running GOBP+GOMF enrichment analysis
286 genes are mapped ...
2020-10-16 20:12:31 # Running CORUM enrichment analysis
172 genes are mapped ...
2020-10-16 20:12:34 # Running GOBP+KEGG enrichment analysis
279 genes are mapped ...
2020-10-16 20:13:05 # Running GOBP enrichment analysis
251 genes are mapped ...
2020-10-16 20:13:21 # Running GOMF+GOBP enrichment analysis
286 genes are mapped ...
2020-10-16 20:13:57 # Running GOMF+GOBP enrichment analysis
286 genes are mapped ...
--- finished re-building ‘MAGeCKFlute_enrichment.Rmd’
SUMMARY: processing the following file failed:
‘MAGeCKFlute.Rmd’
Error: Vignette re-building failed.
Execution halted