[BioC] Troubles with IdeogramTrack
Robert Ivánek
robert.ivanek at unibas.ch
Sun Apr 28 12:02:25 CEST 2013
Hi,
this has been already fixed in version 1.4.1 (release) and 1.5.1 (devel).
Best
Robert
On 27 Apr 2013, at 15:08, Deisy Gysi <deisygysi at gmail.com> wrote:
> Hi,
>
> I'm having some troubles with the IdeogramTrack.
>
> When I made the IdeogramTrack it works, but when I tray to plot it using
> plotTracks it says that I cannot plot it.
>
> But I made this plot this week -worked-, and suddenly in the day after it
> doenst worked anymore. And still doens't.
>
> Can someone help me? Did anyone here had this problem before?
>
>
> Thanks in advance,
> Deisy
>
>> plotTracks(IdeogramTrack(genome="hg19", chromossome = 2))
> Erro em seqnames(seqinfo) :
> erro na avaliação do argumento 'x' na seleção do método para a função
> 'seqnames': 'Erro em validObject(.Object) :
> invalid class “Seqinfo” object: 'seqnames(x)' cannot contain zero-length
> or duplicated names
> '
>
>
>> sessionInfo()
> R version 2.15.1 (2012-06-22)
> Platform: x86_64-pc-linux-gnu (64-bit)
>
> locale:
> [1] LC_CTYPE=pt_BR.UTF-8 LC_NUMERIC=C
> LC_TIME=pt_BR.UTF-8 LC_COLLATE=pt_BR.UTF-8
> [5] LC_MONETARY=pt_BR.UTF-8 LC_MESSAGES=pt_BR.UTF-8
> LC_PAPER=C LC_NAME=C
> [9] LC_ADDRESS=C LC_TELEPHONE=C
> LC_MEASUREMENT=pt_BR.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] splines grid stats graphics grDevices utils datasets
> methods base
>
> other attached packages:
> [1] org.Hs.eg.db_2.8.0
> RSQLite_0.11.2
> DBI_0.2-5
> [4] rtracklayer_1.18.2
> TxDb.Hsapiens.UCSC.hg19.knownGene_2.8.0
> GenomicFeatures_1.10.2
> [7] AnnotationDbi_1.20.7
> Biobase_2.18.0
> gwascat_1.2.1
> [10] graph_1.36.2
> snpStats_1.8.2
> Matrix_1.0-12
> [13] lattice_0.20-15
> survival_2.37-4
> GenomicRanges_1.10.7
> [16] IRanges_1.16.6
> BiocGenerics_0.4.0
> Gviz_1.2.1
> [19] ggbio_1.6.6
> ggplot2_0.9.3.1
>
> loaded via a namespace (and not attached):
> [1] biomaRt_2.14.0 Biostrings_2.26.3
> biovizBase_1.6.2 bitops_1.0-5 BSgenome_1.26.1
> [6] cluster_1.14.4 colorspace_1.2-1
> dichromat_2.0-0 digest_0.6.3 gridExtra_0.9.1
> [11] gtable_0.1.2 Hmisc_3.10-1
> labeling_0.1 MASS_7.3-19 munsell_0.4
> [16] parallel_2.15.1 plyr_1.8
> proto_0.3-10 RColorBrewer_1.0-5 RCurl_1.95-4.1
> [21] reshape2_1.2.2 Rsamtools_1.10.2
> scales_0.2.3 stats4_2.15.1 stringr_0.6.2
> [26] tools_2.15.1 VariantAnnotation_1.4.12
> XML_3.96-1.1 zlibbioc_1.4.0
>
>
>> traceback()
> Nenhum rastreamento disponível
>
>
>
>
> --
> Atenciosamente,
> Deisy Morselli Gysi
>
> Bacharel em Biotecnologia
> Bacharel em Estatística
>
> [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
More information about the Bioconductor
mailing list