[BioC] package built under R version 3.1.0 warning

[Diego Diez]

Thank you Marc.

Diego

On Fri, Nov 8, 2013 at 6:33 AM, Marc Carlson <mcarlson at fhcrc.org> wrote:
> Hi Diego,
>
> It's perfectly OK to use that package.  You can completely ignore that
> warning.  But I will push a new version in a day or so that will not issue
> these unnecessary warnings.
>
>  Marc
>
>
>
>
> On 11/06/2013 10:17 PM, Diego Diez wrote:
>>
>> Dear all,
>>
>> I installed package Mus.musculus on my Bioc-2.13 install with R-3.0.2.
>> When loading the package it warns about it being built for R-3.1.0,
>> which is used for Bioc-devel. Anything wrong on my side?
>>
>> Thank you,
>> Diego
>>
>>> source("http://bioconductor.org/biocLite.R")
>>
>> Bioconductor version 2.13 (BiocInstaller 1.12.0), ?biocLite for help
>>>
>>> biocLite()
>>
>> BioC_mirror: http://bioconductor.org
>> Using Bioconductor version 2.13 (BiocInstaller 1.12.0), R version 3.0.2.
>>>
>>> biocLite("Mus.musculus")
>>
>> BioC_mirror: http://bioconductor.org
>> Using Bioconductor version 2.13 (BiocInstaller 1.12.0), R version 3.0.2.
>> Installing package(s) 'Mus.musculus'
>> trying URL
>> 'http://bioconductor.org/packages/2.13/data/annotation/bin/macosx/contrib/3.0/Mus.musculus_1.1.1.tgz'
>> Content type 'application/x-gzip' length 8014 bytes
>> opened URL
>> ==================================================
>> downloaded 8014 bytes
>>
>>
>> The downloaded binary packages are in
>>
>> /var/folders/jv/hhb2chw51w91mm401l2ns0jr0000gn/T//RtmpERLC5W/downloaded_packages
>>>
>>> library(Mus.musculus)
>>
>> Loading required package: AnnotationDbi
>> 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, 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
>>
>> Loading required package: Biobase
>> Welcome to Bioconductor
>>
>>      Vignettes contain introductory material; view with
>>      'browseVignettes()'. To cite Bioconductor, see
>>      'citation("Biobase")', and for packages 'citation("pkgname")'.
>>
>> Loading required package: OrganismDbi
>> Loading required package: GenomicFeatures
>> Loading required package: IRanges
>> Loading required package: GenomicRanges
>> Loading required package: XVector
>> Loading required package: GO.db
>> Loading required package: DBI
>> Loading required package: org.Mm.eg.db
>> Loading required package: TxDb.Mmusculus.UCSC.mm10.knownGene
>> Warning message:
>> package ‘Mus.musculus’ was built under R version 3.1.0
>>>
>>> sessionInfo()
>>
>> R version 3.0.2 (2013-09-25)
>> Platform: x86_64-apple-darwin10.8.0 (64-bit)
>>
>> locale:
>> [1] C/UTF-8/C/C/C/C
>>
>> attached base packages:
>> [1] parallel  graphics  grDevices utils     datasets  stats     methods
>> [8] base
>>
>> other attached packages:
>>   [1] Mus.musculus_1.1.1
>>   [2] TxDb.Mmusculus.UCSC.mm10.knownGene_2.10.1
>>   [3] org.Mm.eg.db_2.10.1
>>   [4] GO.db_2.10.1
>>   [5] RSQLite_0.11.4
>>   [6] DBI_0.2-7
>>   [7] OrganismDbi_1.4.0
>>   [8] GenomicFeatures_1.14.0
>>   [9] GenomicRanges_1.14.3
>> [10] XVector_0.2.0
>> [11] IRanges_1.20.5
>> [12] AnnotationDbi_1.24.0
>> [13] Biobase_2.22.0
>> [14] BiocGenerics_0.8.0
>> [15] BiocInstaller_1.12.0
>> [16] ggplot2_0.9.3.1
>> [17] devtools_1.3
>>
>> loaded via a namespace (and not attached):
>>   [1] BSgenome_1.30.0    Biostrings_2.30.0  MASS_7.3-29        RBGL_1.38.0
>>   [5] RColorBrewer_1.0-5 RCurl_1.95-4.1     Rsamtools_1.14.1
>> XML_3.95-0.2
>>   [9] biomaRt_2.18.0     bitops_1.0-6       colorspace_1.2-4
>> dichromat_2.0-0
>> [13] digest_0.6.3       evaluate_0.5.1     graph_1.40.0       grid_3.0.2
>> [17] gtable_0.1.2       httr_0.2           labeling_0.2       memoise_0.1
>> [21] munsell_0.4.2      plyr_1.8           proto_0.3-10
>> reshape2_1.2.2
>> [25] rtracklayer_1.22.0 scales_0.2.3       stats4_3.0.2
>> stringr_0.6.2
>> [29] tools_3.0.2        whisker_0.3-2      zlibbioc_1.8.0
>>
>>> biocValid()
>>
>> [1] TRUE
>>
>>
>
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