Hi Martin,

thank you for your help.

Follow your guide :
------
 source('http://bioconductor.org/biocLite.R')
 biocLite(character())
------

I updated all old packages.
I also checked the version of GO.db

> packageDescription("GO.db")$Version
[1] "2.7.1"


But I am very sorry to say that I still face this problem.:


> library(ChIPpeakAnno)
Loading required package: gplots
Loading required package: gtools
Loading required package: gdata
gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED.

gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED.

Attaching package: 'gdata'

The following object(s) are masked from 'package:stats':

    nobs

The following object(s) are masked from 'package:utils':

    object.size

Loading required package: caTools
Loading required package: bitops
Loading required package: grid
Loading required package: KernSmooth
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009

Attaching package: 'gplots'

The following object(s) are masked from 'package:stats':

    lowess

Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following object(s) are masked from 'package:gdata':

    combine

The following object(s) are masked from 'package:stats':

    xtabs

The following object(s) are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, cbind,
    colnames, duplicated, eval, get, intersect, lapply, mapply, mget,
    order, paste, pmax, pmax.int, pmin, pmin.int, rbind, rep.int,
    rownames, sapply, setdiff, table, tapply, union, unique

Loading required package: biomaRt
Loading required package: multtest
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")'.


Attaching package: 'multtest'

The following object(s) are masked from 'package:gplots':

    wapply

Loading required package: IRanges

Attaching package: 'IRanges'

The following object(s) are masked from 'package:gplots':

    space

The following object(s) are masked from 'package:caTools':

    runmean

The following object(s) are masked from 'package:gdata':

    trim

Loading required package: Biostrings
Loading required package: BSgenome
Loading required package: GenomicRanges
Loading required package: BSgenome.Ecoli.NCBI.20080805
Loading required package: GO.db
Loading required package: AnnotationDbi

Attaching package: 'AnnotationDbi'

The following object(s) are masked from 'package:BSgenome':

    species

Loading required package: DBI
Error : .onLoad failed in loadNamespace() for 'GO.db', details:
  call: ls(envir, all.names = TRUE)
  error: 7 arguments passed to .Internal(identical) which requires 6
Error: package 'GO.db' could not be loaded



> sessionInfo()
R version 2.15.0 (2012-03-30)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)

locale:
[1] C

attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods
[8] base

other attached packages:
 [1] RSQLite_0.11.1                      DBI_0.2-5
 [3] AnnotationDbi_1.19.9                BSgenome.Ecoli.NCBI.20080805_1.3.17
 [5] BSgenome_1.25.1                     GenomicRanges_1.9.21
 [7] Biostrings_2.25.4                   IRanges_1.15.12
 [9] multtest_2.13.0                     Biobase_2.17.5
[11] biomaRt_2.13.1                      BiocGenerics_0.3.0
[13] gplots_2.10.1                       KernSmooth_2.23-7
[15] caTools_1.13                        bitops_1.0-4.1
[17] gdata_2.8.2                         gtools_2.6.2
[19] BiocInstaller_1.5.10

loaded via a namespace (and not attached):
[1] MASS_7.3-18      RCurl_1.91-1     XML_3.9-4        splines_2.15.0
[5] stats4_2.15.0    survival_2.36-14 tools_2.15.0
> source('http://bioconductor.org/biocLite.R')
>  biocLite(character())
BioC_mirror: http://bioconductor.org
Using R version 2.15, BiocInstaller version 1.5.10.

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