In subprocess, some commands work but not others from Mac terminal - python

I am trying to create a python script that runs a perl script on the Mac terminal. The popular 3D printer slicing engine, Slic3r, has the ability to use command line usage, which is written in Perl. I want to write a python script to automate some processes, which is the language I know best. If I type the commands I want to use directly into the terminal, it works as it should, however, if I try to use python's subprocess, it works for some commands but not others.
For example if I use my script to fetch the Slic3r version using the syntax outlined in the docs, it works correctly. This script works:
import os
import subprocess
os.system("cd Slic3r")
perl = "perl"
perl_script = "/Users/path/to/Slic3r/slic3r.pl"
params = "--version"
pl_script = subprocess.Popen([perl, perl_script, params], stdout=sys.stdout)
pl_script.communicate()
print 'done'
This returns:
1.3.0-dev
done
If I use a command such as --info (see Slic3r docs under repairing models for more info) using the same script I get:
In:
import os
import subprocess
os.system("cd Slic3r")
perl = "perl"
perl_script = "/Users/path/to/Slic3r/slic3r.pl"
params = "--info /Users/path/to/Desktop/STL_Files/GEAR.stl"
pl_script = subprocess.Popen([perl, perl_script, params], stdout=sys.stdout)
pl_script.communicate()
print 'done'
Out:
Unknown option: info /Users/path/to/Desktop/STL_Files/GEAR.stl
Slic3r 1.3.0-dev is a STL-to-GCODE translator for RepRap 3D printers
written by Alessandro Ranellucci <aar#cpan.org> - http://slic3r.org/
Usage: slic3r.pl [ OPTIONS ] [ file.stl ] [ file2.stl ] ...
From what I have researched, I suspect that there is some issue with the whitespace of a string being used as a argument. I have never used subprocess until attempting this project, so a simple syntax error could be likely.
I know that the Slic3r syntax is correct because it works perfectly if I type it directly into the terminal. Can anybody see what I am doing wrong?

subprocess.Popen accepts args as the first parameter. This can be either a string with the complete command (including parameters):
args = "perl /Users/path/to/Slic3r/slic3r.pl --info /Users/path/to/Desktop/STL_Files/GEAR.stl"
pl_script = subprocess.Popen(args, stdout=sys.stdout)
or a list consisting of the actual command and all its parameters (the actual command in your case is perl):
args = ["perl",
"/Users/path/to/Slic3r/slic3r.pl",
"--info",
"/Users/path/to/Desktop/STL_Files/GEAR.stl"]
pl_script = subprocess.Popen(args, stdout=sys.stdout)
The latter is preferred because it bypasses the shell and directly executes perl. From the docs:
args should be a sequence of program arguments or else a single
string. By default, the program to execute is the first item in args
if args is a sequence. If args is a string, the interpretation is
platform-dependent and described below. See the shell and executable
arguments for additional differences from the default behavior. Unless
otherwise stated, it is recommended to pass args as a sequence.
(emphasis mine)
The args list may of course be built with Python's standard list operations:
base_args = ["perl",
"/Users/path/to/Slic3r/slic3r.pl"]
options = ["--info",
"/Users/path/to/Desktop/STL_Files/GEAR.stl"]
args = base_args + options
args.append("--verbose")
pl_script = subprocess.Popen(args, stdout=sys.stdout)
Sidenote: You wrote os.system("cd Slic3r"). This will open a shell, change the directory in that shell, and then exit. Your Python script will still operate in the original working directory. To change it, use os.chdir("Slic3r") instead. (See here.)

you can also use shlex to break down the complex arguments expecially in mac or unix
more information here
https://docs.python.org/2/library/shlex.html#shlex.split
e.g.
import shlex, subprocess
args = "perl /Users/path/to/Slic3r/slic3r.pl --info /Users/path/to/Desktop/STL_Files/GEAR.stl"
#using shlex to break down the arguments
mac_arg=shlex.split(args)
#shlex.split will return all the arguments in a list
output
['perl', '/Users/path/to/Slic3r/slic3r.pl', '--info', '/Users/path/to/Desktop/STL_Files/GEAR.stl']
This can then further be used with Popen
p1=Popen(mac_arg)
Shlex main adavantage is that you dont need to worry about the commands , it will always split them in a manner accepted by Popen

Related

Bash command not working in Python

I'm trying to execute the next bash command either from Python or Perl:
googlesamples-assistant-pushtotalk --credentials /home/jsti/.config/google-oauthlib-tool/credentials.json
--device-model-id 'pbx-assista' --device-id 'pbx' -i /tmp/google_audio1314_in.wav -o /tmp/google_audio1314_out.wav -v
Basically the idea is to send an audio to Google Assistant, after that, it should answer me the audio with another audio. I should receive an audio file as a response from Google Assistant but I don't receive it. There is no errors but the file does not arrive.
The command works properly if I execute it in the terminal.
Does anyone know what it is happening with this command?
This is the code:
#!/usr/bin/env python
import sys
from asterisk.agi import *
import subprocess
command = "googlesamples-assistant-pushtotalk"
oauth_dir = "/home/jsti/.config/google-oauthlib-tool/credentials.json"
audio_in = "/tmp/google_audio1314_in.wav"
audio_out = "google_audio1314_out.wav"
agi = AGI()
agi.verbose("python agi started")
callerId = agi.env['agi_callerid']
agi.verbose("call from %s" % callerId)
while True:
args = [command, '--credentials', oauth_dir, '--device-model-id', '"pbx-assista"', '--device-id', '"pbx"', '-i', audio_in, '-o', audio_out, '-v' ]
subprocess.Popen(args)
Get rid of the double quotes around "pbx-assista" and "pbx".
args = [command, '--credentials', oauth_dir, '--device-model-id', 'pbx-assista', '--device-id', 'pbx', '-i', audio_in, '-o', audio_out, '-v']
The code in use here doesn't actually wait to allow the subprocess to exit (and doesn't look at whether it succeeded or not, and so can't detect and report errors).
Change:
subprocess.Popen(args)
...to...
subprocess.check_call(args)
...or...
p = subprocess.Popen(args)
p.wait()
Also, you'll want to change '"pbx"' to just 'pbx'; the double quotes in the original bash version are syntactic, just like the single quotes in the Python version are -- you don't need literal quotes in addition to the syntactic ones. (Bash optionally allows syntactic quotes to be left out when they aren't needed to prevent unwanted expansion, make otherwise-syntactically-significant characters literal, or the like; with Python, they're always mandatory when defining a string)

Bash script will not run with subprocess in Python

For some reason, no matter how many variations I've tried, I can't seem to execute a bash script I've written. The command words 100% fine in Terminal, but when I try calling it with a subprocess, it returns nothing.
from os import listdir
import subprocess
computer_name = 'homedirectoryname'
moviefolder = '/Users/{}/Documents/Programming/Voicer/Movies'.format(computer_name)
string = 'The lion king'
for i in listdir(moviefolder):
title = i.split('.')
formatted_title = title[0].replace(' ', '\ ')
if string.lower() == title[0].lower():
command = 'vlc {}/{}.{}'.format(moviefolder, formatted_title, title[1])
subprocess.call(["/usr/local/bin",'-i','-c', command], stdout=subprocess.PIPE,
stderr=subprocess.PIPE, shell=True)
else:
continue
The bash executable file looks like this:
#/bin/bash
func() {
open -a /Applications/VLC.app/Contents/MacOS/VLC $1
}
Where have I gone wrong?
You should call open directly:
import os
import subprocess
computer_name = 'homedirectoryname'
moviefolder = '/Users/{}/Documents/Programming/Voicer/Movies'.format(computer_name)
string = 'The lion king'
for filename in os.listdir(moviefolder):
title = filename.split('.')
if string.lower() == title[0].lower():
subprocess.call(['open', '-a', '/Applications/VLC.app/Contents/MacOS/VLC', os.path.join(moviefolder, filename)])
Since you are using shell=True, the command must be a string:
On Unix with shell=True, the shell defaults to /bin/sh. If args is a
string, the string specifies the command to execute through the shell.
This means that the string must be formatted exactly as it would be
when typed at the shell prompt. This includes, for example, quoting or
backslash escaping filenames with spaces in them. If args is a
sequence, the first item specifies the command string, and any
additional items will be treated as additional arguments to the shell
itself. (docs)
Like you even mentioned in a comment, you get /usr/local/bin: is a directory when you properly capture the error from the shell (and take out the erroneous shell=True; or correspondingly refactor the command line to be suitable for this usage, i.e. pass a string instead of a list).
Just to spell this out, you are attempting to run the command /usr/local/bin with some options; but of course, it's not a valid command; so this fails.
The actual script you seem to want to run will declare a function and then exit, which results in the function's definition being lost again, because the subprocess which ran the shell in which this function declaration was executed has now terminated and released all its resources back to the system.
Perhaps you should take more than just a few steps back and explain what you actually want to accomplish; but really, that should be a new, separate question.
Assuming you are actually trying to run vlc, and guessing some other things, too, perhaps you actually want
subprocess.call(['vlc','{}/{}.{}'.format(moviefolder, formatted_title, title[1]),
stdout=subprocess.PIPE, stderr=subprocess.PIPE)
If your PATH is correct, you should not need to specify /usr/local/bin/ explicitly (and if your PATH is wrong, correct it in the code before, instead of hardcoding a directory for the executable you want to call).
/usr/local/bin is a directory. You can't run a directory as if it were a command.
Anyhow, there's no point to having /usr/local/bin anywhere in your command at all. Leave out the shell=True, and explicitly call vlc:
subprocess.call([
'vlc',
'{}/{}.{}'.format(moviefolder, formatted_title, title[1])
])
When shell=True is used in subprocess.call, if the command arguments is a sequence, then the first element of the sequence needs to be the command, and the rest are treated as argument(s) to the shell itself.
So, this should do:
subprocess.call(["/usr/local/bin/{}".format(command), '-i','-c'], shell=True, ...)
Otherwise, you can make the command a string.
Example:
In [20]: subprocess.call(["cat spamegg", "-i", "-c"], shell=True)
foobar

Python subprocess.check_output(args) fails, while args executed via Windows command line work OK

Some problems with python subprocess.check_output.
output = subprocess.check_output(args)
where my args is:
args = "C:\\DO\\bin\\Config.exe --ChCfg7 --LFE -b1152000 C:\\DO\\PCM\\1.wav C:\\DO\\PCM\\2.wav C:\\DO\\PCM\\3.wav C:\\DO\\PCM\\4.wav C:\\DO\\PCM\\5.wav C:\\DO\\PCM\6.wav --ModeBCast -oC:\\DO\\OUT\\outfile > C:\\DO\\OUT\\log.txt
This works when executed from standard windows command line, but doesn't work when executed via Python subprocess.check_output. In win cmd case there is output file produced and log.txt too, and python script produces out file with size 0, and no log.txt at all.
output = subprocess.check_output(args,shell=True)
Run this with shell=True
Use a list of args and redirect the output to a file:
import subprocess
args = ['C:/DO/bin/Config.exe', '--ChCfg7', '--LFE', '-b1152000', 'C:/DO/PCM/1.wav', 'C:/DO/PCM/2.wav', 'C:/DO/PCM/3.wav', 'C:/DO/PCM/4.wav', 'C:/DO/PCM/5.wav', 'C:/DO/PCM/6.wav', '--ModeBCast', '-oC:/DO/OUT/outfile']
with open("C:/DO/OUT/log.txt", "w") as f:
subprocess.check_call(args, stdout=f)
You can use shell=Truebut for security reasons generally it is not a very good idea and the same can be quite easily achieved using the code above and simply redirecting the output to the file.
> is a shell redirection operator. Either run the command in a shell or (better) as #Padraic Cunningham suggested emulate it in Python:
#!/usr/bin/env python
import subprocess
args = r"C:\DO\bin\Config.exe --ChCfg7 --LFE -b1152000".split()
args += [r'C:\DO\PCM\%d.wav' % i for i in range(1, 7)]
args += ["--ModeBCast", r"-oC:\DO\OUT\outfile"]
with open(r"C:\DO\OUT\log.txt", "wb", 0) as output_file:
subprocess.check_call(args, stdout=output_file)
The code uses raw string literals for Windows paths to avoid escaping backslashes.
There is usually no point to use shell=True on Windows unless you want to run a built-in command such as dir. If args is not constructed using input from an external source then security considerations do not apply. shell=True starts additional process (%COMSPEC%) and it changes how the executable is searched and it changes what characters should be escaped (what characters are metacharacters) — do not use shell=True unless necessary.

Python Subprocess Error in using "cp"

I was trying to use subprocess calls to perform a copy operation (code below):
import subprocess
pr1 = subprocess.call(['cp','-r','./testdir1/*','./testdir2/'], shell = True)
and I got an error saying:
cp: missing file operand
Try `cp --help' for more information.
When I try with shell=False , I get
cp: cannot stat `./testdir1/*': No such file or directory
How do I get around this problem?
I'm using RedHat Linux GNOME Deskop version 2.16.0 and bash shell and Python 2.6
P.S. I read the question posted in Problems with issuing cp command with Popen in Python, and it suggested using shell = True option, which is not working for me as I mentioned :(
When using shell=True, pass a string, not a list to subprocess.call:
subprocess.call('cp -r ./testdir1/* ./testdir2/', shell=True)
The docs say:
On Unix with shell=True, the shell defaults to /bin/sh. If args is a
string, the string specifies the command to execute through the shell.
This means that the string must be formatted exactly as it would be
when typed at the shell prompt. This includes, for example, quoting or
backslash escaping filenames with spaces in them. If args is a
sequence, the first item specifies the command string, and any
additional items will be treated as additional arguments to the shell
itself.
So (on Unix), when a list is passed to subprocess.Popen (or subprocess.call), the first element of the list is interpreted as the command, all the other elements in the list are interpreted as arguments for the shell. Since in your case you do not need to pass arguments to the shell, you can just pass a string as the first argument.
This is an old thread now, but I was just having the same problem.
The problem you were having with this call:
subprocess.call(['cp','-r','./testdir1/*','./testdir2/'], shell = False)
was that each of the parameters after the first one are quoted. So to the shell sees the command like this:
cp '-r' './testdir1/*' './testdir2/'
The problem with that is the wildcard character (*). The filesystem looks for a file with the literal name '*' in the testdir1 directory, which of course, is not there.
The solution is to make the call like the selected answer using the shell = True option and none of the parameters quoted.
I know that the option of shell=True may be tempting but it's always inadvisable due to security issues. Instead, you can use a combination of the subprocess and glob modules.
For Python 3.5 or higher:
import subprocess
import glob
subprocess.run(['cp', '-r'] + glob.glob('./testdir1/*') + ['./testdir2/'])
For Python 3.4 or lower:
import subprocess
import glob
subprocess.call(['cp', '-r'] + glob.glob('./testdir1/*') + ['./testdir2/'])

Python Subprocess Grep

I am trying to use the grep command in a python script using the subprocess module.
Here's what I have:
userid = 'foo12'
p = subprocess.Popen(['grep', "%s *.log"%userid], stdout=subprocess.PIPE)
And it returns nothing.
I am not entirely sure what I am doing wrong so can someone please explain. The current method that I am using that works is by adding the shell=true which makes it output the correct output but as the help pages have pointed out it is unsafe. I need help trying to make this work so that my script isn't unsafe.
I think you're running up against two problems:
This call:
p = subprocess.Popen(['grep', "%s *.log"%userid]...
will not work as expected without shell=True because the list of arguments are being passed directly to os.execvp, which requires each item to be a single string representing an argument. You've squished two separate arguments together into a single string (in other words, grep is interpreting "foo12 *.log" as the pattern to search, and not pattern+file list).
You can fix this by saying:
p = subprocess.Popen(['grep', userid, '*.log']...)
The second issue is that, again without shell=True, execvp doesn't know what you mean by *.log and passes it directly along to grep, without going through the shell's wildcard expansion mechanism. If you don't want to use shell=True, you can instead do something like:
import glob
args = ['grep', userid]
args.extend(glob.glob('*.log')
p = subprocess.Popen(args, ...)
Here are two tested pieces of code to model from:
>>> print subprocess.check_output(['grep', 'python', 'api_talk.txt'])
Discuss python API patterns
Limitations of python
Introspection in python
>>> print subprocess.check_output('grep python *.txt', shell=True)
Use the latter if you want the shell to do wildcard expansion for you. When shell is True, be sure to put the whole command in a single string rather than a list of separate fields.
I am assuming you want to grep for 'foo12' in all files that end with '.log', to get this to work with just subprocess you will need to change your code to the following:
userid = 'foo12'
p = subprocess.Popen('grep %s *.log' % userid, stdout=subprocess.PIPE, shell=True)
shell=True is necessary for the wildcard expansion, and when that option is set you need to provide a string command instead of a list.
Also, make sure when you are providing a list of arguments that each argument is a separate entry in the list, your initial code would have been equivalent to the following:
grep 'foo12 *.log'

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