Running Bash commands in Python

On my local machine, I run a python script which contains this line

bashCommand = "cwm --rdf test.rdf --ntriples > test.nt"
os.system(bashCommand)

This works fine.

Then I run the same code on a server and I get the following error message

'import site' failed; use -v for traceback
Traceback (most recent call last):
File "/usr/bin/cwm", line 48, in <module>
from swap import  diag
ImportError: No module named swap

So what I did then is I inserted a print bashCommand which prints me than the command in the terminal before it runs it with os.system().

Of course, I get again the error (caused by os.system(bashCommand)) but before that error it prints the command in the terminal. Then I just copied that output and did a copy paste into the terminal and hit enter and it works…

Does anyone have a clue what’s going on?

Related Posts:

  1. How to run Conda?
  2. Git Bash won’t run my python files?
  3. Running Bash commands in Python
  4. standard_init_linux.go:178: exec user process caused “exec format error”
  5. bash: mkvirtualenv: command not found
  6. Virtualenv not compatible with this system or executable
  7. bash: pip: command not found
  8. Function for Factorial in Python
  9. TypeError: a bytes-like object is required, not ‘str’ when writing to a file in Python3
  10. Writing a pandas DataFrame to CSV file
  11. Purpose of “%matplotlib inline”
  12. How do I update Anaconda?
  13. TypeError: ‘str’ object is not callable (Python)
  14. Dijkstra’s algorithm in python
  15. How to create a GUID/UUID in Python
  16. Replace ‘ with \’ in a string
  17. How can I install pip on Windows?
  18. Best way to convert string to bytes in Python 3?
  19. Does Python have a string ‘contains’ substring method?
  20. Can’t fix “zipimport.ZipImportError: can’t decompress data; zlib not available” when I type in “python3.6 get-pip.py”
  21. Arrays used as indices must be of integer (or boolean) type
  22. Are static class variables possible in Python?
  23. Why am I getting “LinAlgError: Singular matrix” from grangercausalitytests?
  24. ‘method’ object is not subscriptable. Don’t know what’s wrong
  25. How do I copy a file in Python?
  26. EOFError: Ran out of input
  27. Get Color Palettes from ColorHunt.co in Python
  28. What does the Pydoc module do?
  29. size of NumPy array
  30. Best way to strip punctuation from a string
  31. How can I explicitly free memory in Python?
  32. Type error: cannot convert the series to
  33. Reading a binary file with python
  34. How to determine a Python variable’s type?
  35. Could not find a version that satisfies the requirement
  36. Removing Conda environment
  37. Cannot convert list to array: ValueError: only one element tensors can be converted to Python scalars
  38. How do I plot only a table in Matplotlib?
  39. Change column type in pandas
  40. Split by comma and strip whitespace in Python
  41. How to remove punctuation marks from a string in Python 3.x using .translate()?
  42. Calculating Covariance with Python and Numpy
  43. What is the easiest way to remove all packages installed by pip?
  44. Django 2.1.3 Error: __init__() takes 1 positional argument but 2 were given
  45. Python error load JSON code of google API
  46. How to convert IPython notebooks to PDF and HTML?
  47. ‘Jupyter’ is not recognized as an internal or external command
  48. How to print spaces in Python?
  49. installing urllib in Python3.6
  50. What is sys.maxint in Python 3?
  51. How do you get the magnitude of a vector in Numpy?
  52. Finding all possible permutations of a given string in python
  53. Exit while loop in Python
  54. How do I check if a list is empty?
  55. IndexError: list index out of range and python
  56. Difference between scikit-learn and sklearn
  57. How can I create a text input box with Pygame?
  58. How can I print variable and string on same line in Python?
  59. SettingWithCopyWarning even when using .loc[row_indexer,col_indexer] = value
  60. Append a tuple to a list – what’s the difference between two ways?
  61. No module named Image
  62. How to fix “TypeError: len() of unsized object”
  63. ValueError: Unknown projection ‘3d’ (once again)
  64. Difference between len() and .__len__()?
  65. Python: AttributeError: ‘_io.TextIOWrapper’ object has no attribute ‘split’
  66. How to detect key presses?
  67. isPrime Function for Python Language
  68. Python script to copy text to clipboard
  69. Good ways to “expand” a numpy ndarray?
  70. Python data structure sort list alphabetically
  71. TypeError: ‘numpy.float64’ object does not support item assignment
  72. TypeError: unsupported format string passed to list.__format__
  73. Getting “socket.error: [Errno 61] Connection refused” python paramiko
  74. python setup.py uninstall
  75. ImportError: No module named cv2
  76. ./xx.py: line 1: import: command not found
  77. What is the difference between __str__ and __repr__?
  78. How often does python flush to a file?
  79. How to open every file in a folder
  80. Python iteration over non-sequence
  81. How do I convert a string to a double in Python?
  82. _csv.Error: field larger than field limit (131072)
  83. How do I rotate an image around its center using Pygame?
  84. How can I copy a Python string?
  85. Issue with virtualenv – cannot activate
  86. Can I set max_retries for requests.request?
  87. Calculate weighted average using a pandas/dataframe
  88. Telling Python to save a .txt file to a certain directory on Windows and Mac
  89. Spell Checker for Python
  90. TypeError: coercing to Unicode: need string or buffer, int found
  91. Are nested try/except blocks in Python a good programming practice?
  92. Getting a name error when trying to input a string [duplicate]
  93. How to fix SSL issue SSL_CTX_use_certificate : ca md too weak on Python Zeep
  94. Paramiko’s SSHClient with SFTP
  95. Package libffi was not found in the pkg-config search path REDHAT6.5
  96. Line is too long. Django PEP8
  97. TypeError: zip argument #2 must support iteration
  98. CS231n: How to calculate gradient for Softmax loss function?
  99. How to create a new database using SQLAlchemy?
  100. Python 3 integer division [duplicate]

Leave a Comment