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			<div class="section" id="shell-command">
			<span id="index-0"></span><h1>shell command<a class="headerlink" href="#shell-command" title="Permalink to this headline">¶</a></h1>
			<div class="section" id="syntax">
			<h2>Syntax<a class="headerlink" href="#syntax" title="Permalink to this headline">¶</a></h2>
			<div class="highlight-python"><div class="highlight"><pre>shell cmd args
			</pre></div>
			</div>
			<ul class="simple">
			<li>cmd = <em>cd</em> or <em>mkdir</em> or <em>mv</em> or <em>rm</em> or <em>rmdir</em> or <em>putenv</em> or arbitrary command</li>
			</ul>
			<pre class="literal-block">
			<em>cd</em> arg = dir
			dir = directory to change to
			<em>mkdir</em> args = dir1 dir2 ...
			dir1,dir2 = one or more directories to create
			<em>mv</em> args = old new
			old = old filename
			new = new filename
			<em>rm</em> args = file1 file2 ...
			file1,file2 = one or more filenames to delete
			<em>rmdir</em> args = dir1 dir2 ...
			dir1,dir2 = one or more directories to delete
			<em>putenv</em> args = var1=value1 var2=value2
			var=value = one of more definitions of environment variables
			anything else is passed as a command to the shell for direct execution
			</pre>
			</div>
			<div class="section" id="examples">
			<h2>Examples<a class="headerlink" href="#examples" title="Permalink to this headline">¶</a></h2>
			<div class="highlight-python"><div class="highlight"><pre>shell cd sub1
			shell cd ..
			shell mkdir tmp1 tmp2 tmp3
			shell rmdir tmp1
			shell mv log.lammps hold/log.1
			shell rm TMP/file1 TMP/file2
			shell putenv LAMMPS_POTENTIALS=../../potentials
			shell my_setup file1 10 file2
			shell my_post_process 100 dump.out
			</pre></div>
			</div>
			</div>
			<div class="section" id="description">
			<h2>Description<a class="headerlink" href="#description" title="Permalink to this headline">¶</a></h2>
			<p>Execute a shell command. A few simple file-based shell commands are
			supported directly, in Unix-style syntax. Any command not listed
			above is passed as-is to the C-library system() call, which invokes
			the command in a shell.</p>
			<p>This is means to invoke other commands from your input script. For
			example, you can move files around in preparation for the next section
			of the input script. Or you can run a program that pre-processes data
			for input into LAMMPS. Or you can run a program that post-processes
			LAMMPS output data.</p>
			<p>With the exception of <em>cd</em>, all commands, including ones invoked via a
			system() call, are executed by only a single processor, so that
			files/directories are not being manipulated by multiple processors.</p>
			<p>The <em>cd</em> cmd executes the Unix “cd” command to change the working
			directory. All subsequent LAMMPS commands that read/write files will
			use the new directory. All processors execute this command.</p>
			<p>The <em>mkdir</em> cmd executes the Unix “mkdir” command to create one or
			more directories.</p>
			<p>The <em>mv</em> cmd executes the Unix “mv” command to rename a file and/or
			move it to a new directory.</p>
			<p>The <em>rm</em> cmd executes the Unix “rm” command to remove one or more
			files.</p>
			<p>The <em>rmdir</em> cmd executes the Unix “rmdir” command to remove one or
			more directories. A directory must be empty to be successfully
			removed.</p>
			<p>The <em>putenv</em> cmd defines or updates an environment variable directly.
			Since this command does not pass through the shell, no shell variable
			expansion or globbing is performed, only the usual substitution for
			LAMMPS variables defined with the <a class="reference internal" href="variable.html"><em>variable</em></a> command is
			performed. The resulting string is then used literally.</p>
			<p>Any other cmd is passed as-is to the shell along with its arguments as
			one string, invoked by the C-library system() call. For example,
			these lines in your input script:</p>
			<div class="highlight-python"><div class="highlight"><pre>variable n equal 10
			variable foo string file2
			shell my_setup file1 $n ${foo}
			</pre></div>
			</div>
			<p>would be the same as invoking</p>
			<div class="highlight-python"><div class="highlight"><pre>% my_setup file1 10 file2
			</pre></div>
			</div>
			<p>from a command-line prompt. The executable program “my_setup” is run
			with 3 arguments: file1 10 file2.</p>
			</div>
			<div class="section" id="restrictions">
			<h2>Restrictions<a class="headerlink" href="#restrictions" title="Permalink to this headline">¶</a></h2>
			<p>LAMMPS does not detect errors or print warnings when any of these
			commands execute. E.g. if the specified directory does not exist,
			executing the <em>cd</em> command will silently do nothing.</p>
			<p><strong>Related commands:</strong> none</p>
			<p><strong>Default:</strong> none</p>
			</div>
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