在 R 中安装插入符号包时的依赖性问题答案

【问题标题】：Dependency issue while installing caret package in R在 R 中安装插入符号包时的依赖性问题
【发布时间】：2015-02-13 05:04:41
【问题描述】：

我正在尝试安装 R 包caret

这给了我ERROR: dependencies ‘ggplot2’, ‘reshape2’, ‘BradleyTerry2’ are not available for package ‘caret’

我尝试单独安装每一个，这再次显示安装正在进行，并以 installation of package ‘X’ had non-zero exit status 的消息结束

1: In install.packages("caret") :
  installation of package ‘minqa’ had non-zero exit status
2: In install.packages("caret") :
  installation of package ‘RcppEigen’ had non-zero exit status
3: In install.packages("caret") :
  installation of package ‘scales’ had non-zero exit status
4: In install.packages("caret") :
  installation of package ‘reshape2’ had non-zero exit status
5: In install.packages("caret") :
  installation of package ‘lme4’ had non-zero exit status
6: In install.packages("caret") :
  installation of package ‘ggplot2’ had non-zero exit status
7: In install.packages("caret") :
  installation of package ‘BradleyTerry2’ had non-zero exit status
8: In install.packages("caret") :
  installation of package ‘caret’ had non-zero exit status

递归地请求安装一些包。有什么问题？

我有旧版本，我遇到了类似的错误。我删除并安装了最新的。当前版本是R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet"，但仍然收到类似的错误消息

更新

开始于：install.packages('caret', repos='http://cran.rstudio.com/')，其中显示消息：

Installing package into ‘/usr/local/lib/R/site-library’
(as ‘lib’ is unspecified)
also installing the dependencies ‘minqa’, ‘RcppEigen’, ‘scales’, ‘lme4’, ‘ggplot2’, ‘reshape2’, ‘BradleyTerry2’

流程以 :

结束

installing to /usr/local/lib/R/site-library/reshape2/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Error : package ‘stringr’ was built before R 3.0.0: please re-install it
ERROR: lazy loading failed for package ‘reshape2’
* removing ‘/usr/local/lib/R/site-library/reshape2’
ERROR: dependencies ‘minqa’, ‘RcppEigen’ are not available for package ‘lme4’
* removing ‘/usr/local/lib/R/site-library/lme4’
ERROR: dependencies ‘reshape2’, ‘scales’ are not available for package ‘ggplot2’
* removing ‘/usr/local/lib/R/site-library/ggplot2’
ERROR: dependency ‘lme4’ is not available for package ‘BradleyTerry2’
* removing ‘/usr/local/lib/R/site-library/BradleyTerry2’
ERROR: dependencies ‘ggplot2’, ‘reshape2’, ‘BradleyTerry2’ are not available for package ‘caret’
* removing ‘/usr/local/lib/R/site-library/caret’

The downloaded source packages are in
    ‘/tmp/RtmpcLo8Rw/downloaded_packages’
Warning messages:
1: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘minqa’ had non-zero exit status
2: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘RcppEigen’ had non-zero exit status
3: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘scales’ had non-zero exit status
4: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘reshape2’ had non-zero exit status
5: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘lme4’ had non-zero exit status
6: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘ggplot2’ had non-zero exit status
7: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘BradleyTerry2’ had non-zero exit status
8: In install.packages("caret", repos = "http://cran.rstudio.com/") :
  installation of package ‘caret’ had non-zero exit status

【问题讨论】：

你换repos后试过了吗？ IE。 install.packages('caret', repos='http://cran.rstudio.com/')
@arkun：是的，试过了，请检查更新
如果是这种情况，我会先重新安装stringr，然后一个一个安装依赖项，如果不可用则更改repos，然后安装caret。顺便说一句，我也安装了pumpkin helmet 并安装了caret。
@akrun: 你的 R 版本是多少？
与您的版本相同 R 3.1.2 和 caret_6.0-35, stringr_0.6.2

标签： r r-caret

【解决方案1】：

我之前在 Linux 上安装过它，它可以工作：
sudo apt-get install -y r-cran-rcppeigen

【讨论】：

【解决方案2】：

我遇到了典型的问题。
当我开始加载依赖包时，我发现错误：
was installed by an R version with different internals

重新安装这些包对我有帮助

【讨论】：

【解决方案3】：

在 Linux Mint 17.3 KDE “Rosa”（64 位），x86_64-pc-linux-gnu，
安装 R 版本 3.3.0 (2016-05-03) 后 -- “据称具有教育意义”。

我在使用几个包裹（汽车、素食、心理......）时遇到了类似的问题。通过在命令行（终端）中运行解决了：

sudo apt-get install r-base-dev

R

> install.packages("car")

苏尔特！

【讨论】：

【解决方案4】：

caret 软件包安装也有类似的问题。

我使用 Linux Mint 17.3 Cinnamon 64 位：

R 版本 3.3.0 (2016-05-03)
平台：x86_64-pc-linux-gnu（64 位）
运行于：Ubuntu 14.04.4 LTS

使用命令首次安装插入符号

install.packages('caret', repos='http://cran.rstudio.com/')

给出的错误信息如下 ...

* installing *source* package ‘minqa’ ...
** package ‘minqa’ successfully unpacked and MD5 sums checked
** libs
gfortran   -fpic  -g -O2 -fstack-protector --param=ssp-buffer-size=4  -c altmov.f -o altmov.o
/bin/bash: gfortran: command not found
make: *** [altmov.o] Error 127
ERROR: compilation failed for package ‘minqa’
* removing ‘/home/myusername/R/x86_64-pc-linux-gnu-library/3.3/minqa’
Warning in install.packages :
  installation of package ‘minqa’ had non-zero exit status
* installing *source* package ‘RcppEigen’ ...
** package ‘RcppEigen’ successfully unpacked and MD5 sums checked
** libs

...

/usr/bin/ld: cannot find -llapack
/usr/bin/ld: cannot find -lblas
/usr/bin/ld: cannot find -lgfortran
collect2: error: ld returned 1 exit status
make: *** [RcppEigen.so] Error 1
ERROR: compilation failed for package ‘RcppEigen’

...

然后我尝试运行

install.packages("RcppEigen")

但它不起作用，并且给出了关于 llapack 等的相同错误。接下来我在 linux 命令行上运行：

sudo apt-get install liblapack-dev

（这里安装必要的库）

然后是命令

install.packages("RcppEigen")

效果很好，效果也很好

install.packages('caret', repos='http://cran.rstudio.com/')

所以这个 liblapack-dev 是对我的回答。

结束愉快，感谢本次讨论中的提示！

【讨论】：

【解决方案5】：

我遇到了类似的问题。我用过

install.packages("caret", dependencies = c("Depends"), repos='http://cran.rstudio.com/')
并得到了
ERROR: dependency 'car' is not available for package 'caret'
通过 R 单独安装汽车不起作用，但使用我的发行版 (Fedora) 的包管理器
dnf install R-car

那么第一个命令就成功了。

【讨论】：

【解决方案6】：

作为caret Documentation suggests 执行install.packages("caret", dependencies = c("Depends", "Suggests")) 以确保安装所有需要的包并解决所有依赖项

【讨论】：

在 Fedora 25 上对我没有帮助。Sudoing 也没有帮助。有超过 50 条不可用依赖项的警告。
我一直在尝试使用install_load() 进行安装，这解决了我的问题。

【解决方案7】：

我在尝试在 R 上安装插入符号时遇到了类似的依赖问题：

> install.packages("caret", contriburl = "file:///usr/repo_AO/CRAN/")
ERROR: dependency ‘car’ is not available for package ‘caret’

> install.packages("car", contriburl = "file:///usr/repo_AO/CRAN/")
Installing package into ‘/usr/share/R/library-users’
(as ‘lib’ is unspecified)
Warning message:
package ‘car’ is not available (for R version 3.1.2) 

'car' package is for >= R 3.2
> R.version                
version.string R version 3.1.2 (2014-10-31)

我发现从 OS 安装后，“caret”不再询问依赖项。 R-car-2.0_21-1.8.x86_64.rpm 包中的旧“汽车”版本：

$ sudo yum install --nogpgcheck R-car-2.0_21-1.8.x86_64.rpm
Setting up Install Process
Examining R-car-2.0_21-1.8.x86_64.rpm: R-car-2.0_21-1.8.x86_64
Marking R-car-2.0_21-1.8.x86_64.rpm to be installed
Resolving Dependencies
--> Running transaction check
---> Package R-car.x86_64 0:2.0_21-1.8 will be installed
--> Finished Dependency Resolution
---8<---
Installed:
  R-car.x86_64 0:2.0_21-1.8                                                              
    Complete!

然后：

    > install.packages("caret", contriburl = "file:///usr/repo_AO/CRAN/")
    Installing package into ‘/usr/share/R/library-users’
    (as ‘lib’ is unspecified)
    also installing the dependency ‘ggplot2’
    * installing *source* package ‘ggplot2’ ...
    ** package ‘ggplot2’ successfully unpacked and MD5 sums checked
    ----8<----
    ** building package indices
    ** installing vignettes
    ** testing if installed package can be loaded
    * DONE (ggplot2)
    * installing *source* package ‘caret’ ...
    ** package ‘caret’ successfully unpacked and MD5 sums checked
    ** libs
    gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c caret.c -o caret.o
    gcc -m64 -std=gnu99 -shared -L/usr/lib64/R/lib -L/usr/local/lib64 -o caret.so caret.o -L/usr/lib64/R/lib -lR
    installing to /usr/share/R/library-users/caret/libs
    ----8<----
    ** testing if installed package can be loaded
    * DONE (caret)

(*) 我使用的是本地存储库，因为没有直接的 Internet 连接，但存储库位置无关紧要。

【讨论】：

【解决方案8】：

我在安装 caret 包时遇到了类似的问题。我发现的问题是由更新包依赖引起的。更新一些包也会改变它们的依赖，这些依赖可能没有正确的版本供以后在其他包中使用。就像我安装插入符号时一样，它显示：

Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : there is no package called minqa?

我找到的解决方法是首先找到导致问题的包。您只需安装所需的软件包即可获取此信息。对我来说，一个是“minqa”。所以只需独立安装这个包。

install.packages("minqa")

我的问题就这样解决了。

对你来说，需要一一安装“‘minqa’、‘RcppEigen’、‘scales’、‘lme4’、‘ggplot2’、‘reshape2’、‘BradleyTerry2’”。

【讨论】：