rSFFreader 0.16.0
Matt Settles
| Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/rSFFreader | | Last Changed Rev: 102591 / Revision: 109384 | | Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | OK | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | [ ERROR ] | skipped | skipped | |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### chmod a+r rSFFreader -R && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data rSFFreader
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* checking for file 'rSFFreader/DESCRIPTION' ... OK
* preparing 'rSFFreader':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ...Warning: running command '"E:/biocbld/bbs-3.1-bioc/R/bin/x64/Rscript" --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)"' had status 1
ERROR
Loading required package: ShortRead
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 object is masked from 'package:stats':
xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce,
anyDuplicated, append, as.data.frame, as.vector,
cbind, colnames, do.call, duplicated, eval,
evalq, get, intersect, is.unsorted, lapply,
mapply, match, mget, order, paste, pmax,
pmax.int, pmin, pmin.int, rank, rbind, rep.int,
rownames, sapply, setdiff, sort, table, tapply,
union, unique, unlist, unsplit
Loading required package: BiocParallel
Loading required package: Biostrings
Loading required package: S4Vectors
Loading required package: stats4
Creating a generic function for 'nchar' from package 'base' in package 'S4Vectors'
Loading required package: IRanges
Loading required package: XVector
Loading required package: Rsamtools
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: GenomicAlignments
Warning in readSff(system.file("extdata", "Small454Test.sff", package = "rSFFreader")) :
Reached total allocation of 16371Mb: see help(memory.size)
Warning in readSff(system.file("extdata", "Small454Test.sff", package = "rSFFreader")) :
Reached total allocation of 16371Mb: see help(memory.size)
Warning in readSff(system.file("extdata", "Small454Test.sff", package = "rSFFreader")) :
Reached total allocation of 16371Mb: see help(memory.size)
Warning in readSff(system.file("extdata", "Small454Test.sff", package = "rSFFreader")) :
Reached total allocation of 16371Mb: see help(memory.size)
Error: processing vignette 'rSFFreader.Rnw' failed with diagnostics:
chunk 3 (label = Reads454)
Error : cannot allocate vector of size 912.3 Mb
Execution halted