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POExecuting shell program in Python without printing to screen
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copied!<p>Is there a way that I can execute a shell program from Python, which prints its output to the screen, and read its output to a variable without displaying anything on the screen?</p> <p>This sounds a little bit confusing, so maybe I can explain it better by an example.</p> <p>Let's say I have a program that prints something to the screen when executed</p> <pre><code>bash> ./my_prog bash> "Hello World" </code></pre> <p>When I want to read the output into a variable in Python, I read that a good approach is to use the <code>subprocess</code> module like so:</p> <pre><code>my_var = subprocess.check_output("./my_prog", shell=True) </code></pre> <p>With this construct, I can get the program's output into <code>my_var</code> (here <code>"Hello World"</code>), however it is also printed to the screen when I run the Python script. Is there any way to suppress this? I couldn't find anything in the <code>subprocess</code> documentation, so maybe there is another module I could use for this purpose?</p> <p>EDIT: I just found out that <code>commands.getoutput()</code> lets me do this. But is there also a way to achieve similar effects in <code>subprocess</code>? Because I was planning to make a Python3 version at some point.</p> <hr> <p>EDIT2: Particular Example</p> <p>Excerpt from the python script:</p> <pre><code>oechem_utils_path = "/soft/linux64/openeye/examples/oechem-utilities/"\ "openeye/toolkits/1.7.2.4/redhat-RHEL5-g++4.3-x64/examples/"\ "oechem-utilities/" rmsd_path = oechem_utils_path + "rmsd" for file in lMol2: sReturn = subprocess.check_output("{rmsd_exe} {rmsd_pars}"\ " -in {sIn} -ref {sRef}".format(rmsd_exe=sRmsdExe,\ rmsd_pars=sRmsdPars, sIn=file, sRef=sReference), shell=True) dRmsds[file] = sReturn </code></pre> <hr> <p>Screen Output (Note that not "everything" is printed to the screen, only a part of the output, and if I use <code>commands.getoutput</code> everything works just fine:</p> <pre><code>/soft/linux64/openeye/examples/oechem-utilities/openeye/toolkits/1.7.2.4/redhat-RHEL5-g++4.3-x64/examples/oechem-utilities/rmsd: mols in: 1 out: 0 /soft/linux64/openeye/examples/oechem-utilities/openeye/toolkits/1.7.2.4/redhat-RHEL5-g++4.3-x64/examples/oechem-utilities/rmsd: confs in: 1 out: 0 /soft/linux64/openeye/examples/oechem-utilities/openeye/toolkits/1.7.2.4/redhat-RHEL5-g++4.3-x64/examples/oechem-utilities/rmsd - RMSD utility [OEChem 1.7.2] /soft/linux64/openeye/examples/oechem-utilities/openeye/toolkits/1.7.2.4/redhat-RHEL5-g++4.3-x64/examples/oechem-utilities/rmsd: mols in: 1 out: 0 /soft/linux64/openeye/examples/oechem-utilities/openeye/toolkits/1.7.2.4/redhat-RHEL5-g++4.3-x64/examples/oechem-utilities/rmsd: confs in: 1 out: 0 </code></pre>

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