Aaron Lun
| Snapshot Date: 2018-05-18 07:35:08 -0400 (Fri, 18 May 2018) |
| URL: https://git.bioconductor.org/packages/simpleSingleCell |
| Branch: RELEASE_3_7 |
| Last Commit: 6506bf0 |
| Last Changed Date: 2018-04-30 10:07:09 -0400 (Mon, 30 Apr 2018) |
| Back to Workflows build report for BioC 3.7 |
This page was generated on 2018-05-18 12:48:09 -0400 (Fri, 18 May 2018).
| Package 19/21 | Hostname | OS / Arch | INSTALL | BUILD | BUILD WEB VIG | ||||||
| simpleSingleCell 1.2.0 Aaron Lun
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | |
| Package: simpleSingleCell |
| Version: 1.2.0 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-0-intro.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-0-intro.Rmd", ".buildwebvig/simpleSingleCell/work-0-intro.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-1-reads.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-1-reads.Rmd", ".buildwebvig/simpleSingleCell/work-1-reads.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-2-umis.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-2-umis.Rmd", ".buildwebvig/simpleSingleCell/work-2-umis.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-3-tenx.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-3-tenx.Rmd", ".buildwebvig/simpleSingleCell/work-3-tenx.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-4-misc.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-4-misc.Rmd", ".buildwebvig/simpleSingleCell/work-4-misc.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-5-mnn.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-5-mnn.Rmd", ".buildwebvig/simpleSingleCell/work-5-mnn.R")' |
| StartedAt: 2018-05-18 08:51:45 -0400 (Fri, 18 May 2018) |
| EndedAt: 2018-05-18 09:24:36 -0400 (Fri, 18 May 2018) |
| EllapsedTime: 1970.9 seconds |
| RetCode: 0 |
| Status: OK |
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### /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-0-intro.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-0-intro.Rmd", ".buildwebvig/simpleSingleCell/work-0-intro.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-1-reads.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-1-reads.Rmd", ".buildwebvig/simpleSingleCell/work-1-reads.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-2-umis.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-2-umis.Rmd", ".buildwebvig/simpleSingleCell/work-2-umis.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-3-tenx.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-3-tenx.Rmd", ".buildwebvig/simpleSingleCell/work-3-tenx.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-4-misc.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-4-misc.Rmd", ".buildwebvig/simpleSingleCell/work-4-misc.R")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/simpleSingleCell/work-5-mnn.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/simpleSingleCell/work-5-mnn.Rmd", ".buildwebvig/simpleSingleCell/work-5-mnn.R")'
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> rmarkdown::render(".buildwebvig/simpleSingleCell/work-0-intro.Rmd", output_format="BiocStyle:::html_fragment")
processing file: work-0-intro.Rmd
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output file: work-0-intro.knit.md
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Output created: work-0-intro.html
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processing file: .buildwebvig/simpleSingleCell/work-0-intro.Rmd
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output file: .buildwebvig/simpleSingleCell/work-0-intro.R
[1] ".buildwebvig/simpleSingleCell/work-0-intro.R"
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output file: work-1-reads.knit.md
/usr/bin/pandoc +RTS -K512m -RTS work-1-reads.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output work-1-reads.html --email-obfuscation none --self-contained --wrap preserve --standalone --section-divs --table-of-contents --toc-depth 3 --template /home/biocbuild/bbs-3.7-bioc/R/library/BiocStyle/resources/fragment.html --no-highlight --number-sections --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --filter /usr/bin/pandoc-citeproc
Output created: work-1-reads.html
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> knitr::purl(".buildwebvig/simpleSingleCell/work-1-reads.Rmd", ".buildwebvig/simpleSingleCell/work-1-reads.R")
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output file: .buildwebvig/simpleSingleCell/work-1-reads.R
[1] ".buildwebvig/simpleSingleCell/work-1-reads.R"
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pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
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Welcome to Bioconductor
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output file: work-2-umis.knit.md
/usr/bin/pandoc +RTS -K512m -RTS work-2-umis.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output work-2-umis.html --email-obfuscation none --self-contained --wrap preserve --standalone --section-divs --table-of-contents --toc-depth 3 --template /home/biocbuild/bbs-3.7-bioc/R/library/BiocStyle/resources/fragment.html --no-highlight --number-sections --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --filter /usr/bin/pandoc-citeproc
Output created: work-2-umis.html
>
>
> knitr::purl(".buildwebvig/simpleSingleCell/work-2-umis.Rmd", ".buildwebvig/simpleSingleCell/work-2-umis.R")
processing file: .buildwebvig/simpleSingleCell/work-2-umis.Rmd
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output file: .buildwebvig/simpleSingleCell/work-2-umis.R
[1] ".buildwebvig/simpleSingleCell/work-2-umis.R"
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clusterExport, clusterMap, parApply, parCapply, parLapply,
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IQR, mad, sd, var, xtabs
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anyDuplicated, append, as.data.frame, basename, cbind, colMeans,
colnames, colSums, dirname, do.call, duplicated, eval, evalq,
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lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,
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unsplit, which, which.max, which.min
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Welcome to Bioconductor
Vignettes contain introductory material; view with
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'citation("Biobase")', and for packages 'citation("pkgname")'.
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inline R code fragments
output file: work-5-mnn.knit.md
/usr/bin/pandoc +RTS -K512m -RTS work-5-mnn.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output work-5-mnn.html --email-obfuscation none --self-contained --wrap preserve --standalone --section-divs --table-of-contents --toc-depth 3 --template /home/biocbuild/bbs-3.7-bioc/R/library/BiocStyle/resources/fragment.html --no-highlight --number-sections --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --filter /usr/bin/pandoc-citeproc
Output created: work-5-mnn.html
Warning message:
In isOutlier(QC$feature_control_ERCC$pct_counts, type = "higher", :
missing values ignored during outlier detection
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> knitr::purl(".buildwebvig/simpleSingleCell/work-5-mnn.Rmd", ".buildwebvig/simpleSingleCell/work-5-mnn.R")
processing file: .buildwebvig/simpleSingleCell/work-5-mnn.Rmd
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output file: .buildwebvig/simpleSingleCell/work-5-mnn.R
[1] ".buildwebvig/simpleSingleCell/work-5-mnn.R"
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