无法安装bioconductor';基因组学功能包:“;setGeneric中的错误";
我在安装GenomicFeatures(R中的一个bioconductor软件包)时遇到问题,但我尝试安装的所有其他bioconductor软件包都正常工作。基因组特征的错误是:无法安装bioconductor';基因组学功能包:“;setGeneric中的错误";,r,bioconductor,R,Bioconductor,我在安装GenomicFeatures(R中的一个bioconductor软件包)时遇到问题,但我尝试安装的所有其他bioconductor软件包都正常工作。基因组特征的错误是: Error in setGeneric(f, where = where) : must supply a function skeleton for ‘cols’, explicitly or via an existing function Error : unable to load R code in pac
Error in setGeneric(f, where = where) :
must supply a function skeleton for ‘cols’, explicitly or via an existing
function Error : unable to load R code in package ‘GenomicFeatures’
我在谷歌上搜索了这个错误,发现只有两三个链接(与其他R软件包相关),通常问题是由于安装了旧的R,但我有一个相当新的
我有R3.0.0和biocond.v2.13
在另一台装有R.3.0.0和biocond.v2.12的计算机上,它安装正常
我将感谢任何提示或指示下一步尝试什么,以找出GF安装失败的原因
我的环境和安装命令以及会话信息:
$ R
R version 3.0.0 (2013-04-03) -- "Masked Marvel"
Copyright (C) 2013 The R Foundation for Statistical Computing
Platform: x86_64-unknown-linux-gnu (64-bit)
> source("http://bioconductor.org/biocLite.R")
Bioconductor version 2.13 (BiocInstaller 1.11.1), ?biocLite for help
> biocLite("GenomicFeatures")
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.13 (BiocInstaller 1.11.1), R version 3.0.0.
Installing package(s) 'GenomicFeatures'
trying URL 'http://bioconductor.org/packages/2.13/bioc/src/contrib/GenomicFeatures_1.13.8.tar.gz'
Content type 'application/x-gzip' length 752535 bytes (734 Kb)
opened URL
==================================================
downloaded 734 Kb
* installing *source* package âGenomicFeaturesâ ...
** R
** inst
** preparing package for lazy loading
Error in setGeneric(f, where = where) :
must supply a function skeleton for âcolsâ, explicitly or via an existing function
Error : unable to load R code in package âGenomicFeaturesâ
ERROR: lazy loading failed for package âGenomicFeaturesâ
* removing â/scratch_local/ugdg_software/lib/R/library/GenomicFeaturesâ
* restoring previous â/scratch_local/ugdg_software/lib/R/library/GenomicFeaturesâ
> sessionInfo()
R version 3.0.0 (2013-04-03)
Platform: x86_64-unknown-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_GB.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_GB.UTF-8 LC_COLLATE=en_GB.UTF-8
[5] LC_MONETARY=en_GB.UTF-8 LC_MESSAGES=en_GB.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
[固定]
正如Martin所说,今天发布的新版本(2013-06-02)修复了这个问题。看起来您使用的是Bioconductor的“devel”版本(目前,根据上面的输出,是Bioconductor 2.13版),而您正受到前沿变化的影响。GenomicFeatures软件包已经发布了几天,通过BioLite提供的版本无法与其他可用软件包正常工作。我相信今晚将成功构建基因组功能,这将在西雅图时间6月2日星期日上午10点左右提供
这个问题的正确答案是Bioconductor或Bioc-devel谢谢Martin。我尝试了第一个bioconductor邮件列表(我已经订阅了),但被Google邮件/gmail的双重性所困扰,我的邮件被转到了“等待主持人决定”。