Python redirecting output from an LSF command

Question

I am trying to run an LSF command , 'bjobs' inside a python code using subprocess and I am unable to get the output into a variable

Ways I have already tried and failed are as follows:

proc = subprocess.Popen(['bjobs'],stdout=subprocess.PIPE)
print proc.stdout.read() ## Not working

stdout,stderr = subprocess.Popen(['bjobs'],stdout=subprocess.PIPE).communicate()

print stdout # prints empty line

I do not want to redirect that to a physical file.

So please help me to find a way to directly capture them to a variable

I am expecting to capture the "No unfinished job found" message when you run the bjobs command while there are no pending jobs. — Krishna, Apr 17 '15 at 08:56

score 1 · Accepted Answer · answered Apr 17 '15 at 10:36

As pointed out by a comment above, the "No unfinished job found" message is printed to stderr:

[~]$ bjobs > /dev/null
No unfinished job found
[~]$ bjobs >& /dev/null
[~]$

If you want all bjobs output you should redirect subprocess stderr to stdout:

proc = subprocess.Popen(["bjobs"],stdout=subprocess.PIPE,stderr=subprocess.STDOUT)
print proc.stdout.read()

Python redirecting output from an LSF command

1 Answers1