我正在尝试运行同时使用R和Python代码块的R Markdown文档。我在macOS Catalina版本10.15.2上,R版本是3.6.2,RStudio版本是1.2.5033。我正在使用reticulate
软件包版本1.14。
which python
在终端上显示/Users/dhirajkhanna/opt/anaconda3/bin/python
,并且在我的.Renviron
文件中输入的内容与RETICULATE_PYTHON=/Users/dhirajkhanna/opt/anaconda3/bin/python
相同。奇怪的是,当我在RStudio控制台中执行Sys.which('python')
时,它显示了一条不同的路径,即。 /usr/bin/python
。当我加载reticulate
程序包时,py_config()
的输出为:
python: /usr/local/bin/python3
libpython: /usr/local/opt/python/Frameworks/Python.framework/Versions/3.7/lib/python3.7/config-3.7m-darwin/libpython3.7.dylib
pythonhome: /usr/local/Cellar/python/3.7.4/Frameworks/Python.framework/Versions/3.7:/usr/local/Cellar/python/3.7.4/Frameworks/Python.framework/Versions/3.7
version: 3.7.4 (default, Jul 9 2019, 18:13:23) [Clang 10.0.1 (clang-1001.0.46.4)]
numpy: /usr/local/lib/python3.7/site-packages/numpy
numpy_version: 1.16.4
python versions found:
/usr/bin/python3
/usr/local/bin/python3
/usr/bin/python
/usr/local/bin/python
/Users/dhirajkhanna/anaconda3/bin/python
/Users/dhirajkhanna/.virtualenvs/object_recognition_detection/bin/python
/Users/dhirajkhanna/.virtualenvs/object_recognition_detection1/bin/python
/Users/dhirajkhanna/.virtualenvs/r-tensorflow/bin/python
/Users/dhirajkhanna/venv/bin/python
如果指定use_python('/Users/dhirajkhanna/opt/anaconda3/bin/python')
,则py_config()
的输出为:
python: /Users/dhirajkhanna/opt/anaconda3/bin/python
libpython: /Users/dhirajkhanna/opt/anaconda3/lib/libpython3.7m.dylib
pythonhome: /Users/dhirajkhanna/opt/anaconda3:/Users/dhirajkhanna/opt/anaconda3
version: 3.7.5 (default, Oct 25 2019, 10:52:18) [Clang 4.0.1 (tags/RELEASE_401/final)]
numpy: /Users/dhirajkhanna/opt/anaconda3/lib/python3.7/site-packages/numpy
numpy_version: 1.17.3
python versions found:
/Users/dhirajkhanna/opt/anaconda3/bin/python
/usr/bin/python3
/usr/local/bin/python3
/usr/bin/python
/usr/local/bin/python
/Users/dhirajkhanna/anaconda3/bin/python
/Users/dhirajkhanna/.virtualenvs/object_recognition_detection/bin/python
/Users/dhirajkhanna/.virtualenvs/object_recognition_detection1/bin/python
/Users/dhirajkhanna/.virtualenvs/r-tensorflow/bin/python
/Users/dhirajkhanna/venv/bin/python
现在,当我尝试在Python代码块中加载Python包时,RStudio崩溃:
import pandas as pd
import matplotlib.pyplot as plt
我收到“ R Session Aborted”消息。在我升级R之前,所有这些都工作正常。您知道如何纠正此问题吗?
编辑
在R中尝试此操作时,出现了细分错误:
> library(reticulate)
> repl_python()
Python 3.7.6 (/Users/dhirajkhanna/opt/anaconda3/bin/python)
Reticulate 1.14 REPL -- A Python interpreter in R.
>>> import pandas as pd
*** caught segfault ***
address 0x0, cause 'memory not mapped'
Traceback:
1: py_eval_impl(code, convert)
2: py_eval("_", convert = FALSE)
3: doTryCatch(return(expr), name, parentenv, handler)
4: tryCatchOne(expr, names, parentenv, handlers[[1L]])
5: tryCatchList(expr, classes, parentenv, handlers)
6: tryCatch(py_eval("_", convert = FALSE), error = function(e) r_to_py(NULL))
7: py_last_value()
8: py_compile_eval(code)
9: doTryCatch(return(expr), name, parentenv, handler)
10: tryCatchOne(expr, names, parentenv, handlers[[1L]])
11: tryCatchList(expr, classes, parentenv, handlers)
12: tryCatch(py_compile_eval(code), error = handle_error)
13: repl()
14: repl_python()
Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection:
我也尝试过在virtualenv中运行不同版本的Python(3.6),但仍然没有乐趣。
Rcpp
和reticulate
的全新安装解决了该问题。更多详细信息here。