I am trying to install the latest org.Hs.eg.db package but I get the following error. Any ideas on how to deal with this ?
install.packages("org.Hs.eg.db_3.1.2.tar.gz", repos = NULL, type = "source")
Installing package into ‘/Users/jaiswal/Library/R/3.1/library’
(as ‘lib’ is unspecified)
* installing *source* package ‘org.Hs.eg.db’ ...
** R
** inst
** preparing package for lazy loading
Warning: package ‘AnnotationDbi’ was built under R version 3.2.0
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
Note: the specification for class “Annotated” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “DataFrame” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “DataTable” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “DataTableORNULL” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “Hits” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “List” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “Rle” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “SimpleList” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “Vector” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “characterORNULL” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “vectorORfactor” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for S3 class “xtabs” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Warning: multiple methods tables found for ‘width’
Warning: multiple methods tables found for ‘start<-’
Warning: multiple methods tables found for ‘width<-’
Warning: multiple methods tables found for ‘end<-’
Warning: multiple methods tables found for ‘score’
Warning: multiple methods tables found for ‘score<-’
Warning: multiple methods tables found for ‘unsplit’
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
Warning: package ‘AnnotationDbi’ was built under R version 3.2.0
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
Note: the specification for class “Annotated” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “DataFrame” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “DataTable” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “DataTableORNULL” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “Hits” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “List” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “Rle” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “SimpleList” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “Vector” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “characterORNULL” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for class “vectorORfactor” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Note: the specification for S3 class “xtabs” in package ‘IRanges’ seems equivalent to one from package ‘S4Vectors’: not turning on duplicate class definitions for this class.
Warning: multiple methods tables found for ‘width’
Warning: multiple methods tables found for ‘start<-’
Warning: multiple methods tables found for ‘width<-’
Warning: multiple methods tables found for ‘end<-’
Warning: multiple methods tables found for ‘score’
Warning: multiple methods tables found for ‘score<-’
Warning: multiple methods tables found for ‘unsplit’
Error : .onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
call: ls(ann_objs)
error: could not find symbol "sorted" in environment of the generic function
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/Users/jaiswal/Library/R/3.1/library/org.Hs.eg.db’
* restoring previous ‘/Users/jaiswal/Library/R/3.1/library/org.Hs.eg.db’
Warning in install.packages :
installation of package ‘org.Hs.eg.db_3.1.2.tar.gz’ had non-zero exit status