尝试使用rpy2从python库rJava时出错

当我试图使用

rpy2

包从Python加载

rJava

时遇到问题。我搜索并阅读了许多问题，但没有一个能解决我的问题

我在我的R环境中安装了

rJava

正常工作

(base) pri@pri:~$ R

R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

> library(data.table)
data.table 1.12.8 using 4 threads (see ?getDTthreads).  Latest news: r-datatable.com
> library(rJava)
> 

然而，当我尝试使用

rpy2

从Python加载它时，我得到了错误：

(base) pri@pri:~$ python3
Python 3.7.7 (default, Mar 26 2020, 15:48:22) 
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import rpy2.robjects as robjects
>>> robjects.r('''library(data.table); library(rJava)''')
R[write to console]: data.table 1.12.8 using 4 threads (see ?getDTthreads).  Latest news: r-datatable.com

R[write to console]: Error: package or namespace load failed for ‘rJava’:
 .onLoad failed in loadNamespace() for 'rJava', details:
  call: dyn.load(file, DLLpath = DLLpath, ...)
  error: unable to load shared object '/home/pri/R/x86_64-pc-linux-gnu-library/3.6/rJava/libs/rJava.so':
  libjvm.so: cannot open shared object file: No such file or directory

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/pri/anaconda3/lib/python3.7/site-packages/rpy2/robjects/__init__.py", line 416, in __call__
    res = self.eval(p)
  File "/home/pri/anaconda3/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 198, in __call__
    .__call__(*args, **kwargs))
  File "/home/pri/anaconda3/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 125, in __call__
    res = super(Function, self).__call__(*new_args, **new_kwargs)
  File "/home/pri/anaconda3/lib/python3.7/site-packages/rpy2/rinterface_lib/conversion.py", line 44, in _
    cdata = function(*args, **kwargs)
  File "/home/pri/anaconda3/lib/python3.7/site-packages/rpy2/rinterface.py", line 623, in __call__
    raise embedded.RRuntimeError(_rinterface._geterrmessage())
rpy2.rinterface_lib.embedded.RRuntimeError: Error: package or namespace load failed for ‘rJava’:
 .onLoad failed in loadNamespace() for 'rJava', details:
  call: dyn.load(file, DLLpath = DLLpath, ...)
  error: unable to load shared object '/home/pri/R/x86_64-pc-linux-gnu-library/3.6/rJava/libs/rJava.so':
  libjvm.so: cannot open shared object file: No such file or directory

并根据linux设置正确配置：

(base) pri@pri:~$ cat /usr/lib/R/etc/ldpaths | grep R_JAVA_LD_LIBRARY_PATH
: ${R_JAVA_LD_LIBRARY_PATH=${JAVA_HOME}/lib/server}
if test -n "${R_JAVA_LD_LIBRARY_PATH}"; then
  R_LD_LIBRARY_PATH="${R_LD_LIBRARY_PATH}:${R_JAVA_LD_LIBRARY_PATH}"

出于好奇，我还尝试将其附加到R的

.libPaths（）

，但没有成功：

JDBC_exe = "/usr/lib/jvm/default-java/lib/server/"
robjects.r('''.libPaths(c('{}', .libPaths()))'''\
            .format(JDBC_exe))

---

任何关于我在此处缺少的内容以及如何修复此问题的指针。

当确保环境变量

LD\u LIBRARY\u PATH

的值与此命令的输出兼容时，大多数与动态链接相关的问题都应得到解决：

python -m rpy2.situation LD_LIBRARY_PATH

python -m rpy2.situation LD_LIBRARY_PATH