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Question: Error in installing Gviz
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gravatar for 马磊
4.9 years ago by
马磊10
马磊10 wrote:
Hi everyone, When I install Gviz_1.4.5.tar.gz, I enconter the following error messeage. Would you help me to resovle these errors? * installing *source* package 'Gviz' ... ** R ** data ** inst ** preparing package for lazy loading Error : object 'subseq' is not exported by 'namespace:IRanges' ERROR: lazy loading failed for package 'Gviz' Best wishes, Mark [[alternative HTML version deleted]]
ADD COMMENTlink modified 14 months ago by Sameet Mehta30 • written 4.9 years ago by 马磊10
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gravatar for Sameet Mehta
14 months ago by
Sameet Mehta30
United States
Sameet Mehta30 wrote:

It seems the easiest fix is biocValid(fix = T).

ADD COMMENTlink modified 14 months ago • written 14 months ago by Sameet Mehta30
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gravatar for Martin Morgan
4.9 years ago by
Martin Morgan ♦♦ 22k
United States
Martin Morgan ♦♦ 22k wrote:
On 10/05/2013 08:39 AM, ?? wrote: > Hi everyone, > When I install Gviz_1.4.5.tar.gz, I enconter the following error messeage. Would you help me to resovle these errors? > > * installing *source* package 'Gviz' ... > ** R > ** data > ** inst > ** preparing package for lazy loading > Error : object 'subseq' is not exported by 'namespace:IRanges' > ERROR: lazy loading failed for package 'Gviz' Hi -- I think that you have incompatible versions of packages, specifically the 'devel' (odd-numbered second field in version number) version of IRanges. Try source('http://bioconductor.org/biocLite.R') biocValid() and follow instructions to update packages. If this does not work please provide the output of sessionInfo() after (trying to) installing Gviz. If instead you'd like to use 'devel', including the devel version of Gviz, then follow the instructions at http://bioconductor.org/developers/how-to/useDevel/ Here is my sessionInfo() > sessionInfo() R version 3.0.2 Patched (2013-10-02 r64018) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] grid stats graphics grDevices utils datasets methods [8] base other attached packages: [1] Gviz_1.4.5 loaded via a namespace (and not attached): [1] AnnotationDbi_1.22.6 Biobase_2.20.1 BiocGenerics_0.6.0 [4] biomaRt_2.16.0 Biostrings_2.28.0 biovizBase_1.8.1 [7] bitops_1.0-6 BSgenome_1.28.0 cluster_1.14.4 [10] colorspace_1.2-4 DBI_0.2-7 dichromat_2.0-0 [13] GenomicFeatures_1.12.4 GenomicRanges_1.12.5 Hmisc_3.12-2 [16] IRanges_1.18.4 labeling_0.2 lattice_0.20-23 [19] munsell_0.4.2 parallel_3.0.2 plyr_1.8 [22] RColorBrewer_1.0-5 RCurl_1.95-4.1 rpart_4.1-3 [25] Rsamtools_1.12.4 RSQLite_0.11.4 rtracklayer_1.20.4 [28] scales_0.2.3 stats4_3.0.2 stringr_0.6.2 [31] tools_3.0.2 XML_3.98-1.1 zlibbioc_1.6.0 > > Best wishes, > > Mark > [[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 > -- Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793
ADD COMMENTlink written 4.9 years ago by Martin Morgan ♦♦ 22k
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