RefNet 1.6.0
Paul Shannon
| Snapshot Date: 2015-11-09 16:24:09 -0800 (Mon, 09 Nov 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/RefNet | | Last Changed Rev: 109589 / Revision: 110496 | | Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | ERROR | skipped | | |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | [ ERROR ] | skipped | skipped | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | ERROR | skipped | skipped | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RefNet
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* checking for file ‘RefNet/DESCRIPTION’ ... OK
* preparing ‘RefNet’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: IRanges
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport,
clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply,
parSapply, parSapplyLB
The following objects are masked from ‘package:stats’:
IQR, mad, xtabs
The following objects are masked from ‘package:base’:
anyDuplicated, append, as.data.frame, as.vector, cbind, colnames, do.call,
duplicated, eval, evalq, Filter, Find, get, grep, grepl, intersect,
is.unsorted, lapply, lengths, Map, mapply, match, mget, order, paste, pmax,
pmax.int, pmin, pmin.int, Position, rank, rbind, Reduce, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unlist, unsplit
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: PSICQUIC
Loading required package: biomaRt
Loading required package: httr
Loading required package: plyr
Attaching package: ‘plyr’
The following object is masked from ‘package:IRanges’:
desc
The following object is masked from ‘package:S4Vectors’:
rename
Loading required package: AnnotationHub
Loading required package: RCurl
Loading required package: bitops
Loading required package: shiny
snapshotDate(): 2015-11-05
loading from cache ‘/Users/biocbuild/.AnnotationHub/27766’
loading from cache ‘/Users/biocbuild/.AnnotationHub/27767’
loading from cache ‘/Users/biocbuild/.AnnotationHub/27768’
loading from cache ‘/Users/biocbuild/.AnnotationHub/27769’
checking for biomart access...
does 'http://www.biomart.org' respond?
creating ensembl mart
Error: processing vignette 'RefNet.Rnw' failed with diagnostics:
chunk 4 (label = mapper)
Error : 1: Space required after the Public Identifier
2: SystemLiteral " or ' expected
3: SYSTEM or PUBLIC, the URI is missing
4: Opening and ending tag mismatch: hr line 7 and body
5: Opening and ending tag mismatch: body line 4 and html
6: Premature end of data in tag html line 2
Execution halted