"rtracklayer" is not compatible with the lateset "IRanges" package
1
0
Entering edit mode
li lilingdu ▴ 450
@li-lilingdu-1884
Last seen 4.2 years ago
the newest "rtracklayer" and "IRanges" packages are not compatible, is it because class "ANYTHING" is not defined in package "IRanges" since version 1.3.73 anymore? library(rtracklayer) Loading required package: RCurl Loading required package: bitops browserSession("UCSC")->inter range(inter) ###error! #Error in validObject(.Object) : # invalid class "ucscCart" object: superclass "ANYTHING" not defined in the #environment of the object's class rtracklayer:::ucscCart(inter) ###error! #Error in validObject(.Object) : # invalid class "ucscCart" object: superclass "ANYTHING" not defined in the #environment of the object's class getClass("ANYTHING",where=getNamespace("IRanges")) ##error! "ANYTHING" is not defined in package "IRanges" since version 1.3.75 #anymore #Error in getClass("ANYTHING", where = getNamespace("IRanges")) : # "ANYTHING" is not a defined class sessionInfo() R version 2.10.0 Under development (unstable) (2009-09-14 r49685) i386-pc-mingw32 locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] rtracklayer_1.5.13 RCurl_1.2-0 bitops_1.0-4.1 loaded via a namespace (and not attached): [1] Biobase_2.5.6 Biostrings_2.13.39 BSgenome_1.13.11 IRanges_1.3.75 Rcompression_0.6-0 XML_2.6-0
• 611 views
ADD COMMENT
0
Entering edit mode
@michael-lawrence-2759
Last seen 7.9 years ago
Have you tried reinstalling rtracklayer? Michael On Wed, Sep 16, 2009 at 8:14 PM, LiGang <luzifer.li@gmail.com> wrote: > > the newest "rtracklayer" and "IRanges" packages are not compatible, is it > because class "ANYTHING" is not defined in package "IRanges" since version > 1.3.73 anymore? > > library(rtracklayer) > > Loading required package: RCurl > Loading required package: bitops > > browserSession("UCSC")->inter > range(inter) > > > ###error! > #Error in validObject(.Object) : > # invalid class "ucscCart" object: superclass "ANYTHING" not defined in > the > #environment of the object's class > > rtracklayer:::ucscCart(inter) > > ###error! > #Error in validObject(.Object) : > # invalid class "ucscCart" object: superclass "ANYTHING" not defined in > the > #environment of the object's class > > getClass("ANYTHING",where=getNamespace("IRanges")) > > ##error! "ANYTHING" is not defined in package "IRanges" since version > 1.3.75 > #anymore > > #Error in getClass("ANYTHING", where = getNamespace("IRanges")) : > # "ANYTHING" is not a defined class > > sessionInfo() > R version 2.10.0 Under development (unstable) (2009-09-14 r49685) > i386-pc-mingw32 > > locale: > [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United > States.1252 > LC_MONETARY=English_United States.1252 > [4] LC_NUMERIC=C LC_TIME=English_United > States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] rtracklayer_1.5.13 RCurl_1.2-0 bitops_1.0-4.1 > > loaded via a namespace (and not attached): > [1] Biobase_2.5.6 Biostrings_2.13.39 BSgenome_1.13.11 IRanges_1.3.75 > Rcompression_0.6-0 XML_2.6-0 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]
ADD COMMENT

Login before adding your answer.

Traffic: 388 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6