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<meta name="description" content=" Singularity Shell UsageThe shell Singularity sub-command will automatically spawn a shell within a container. The default and the only requirement of any Singularity container is that /bin/sh must be present, and thus /bin/sh is also used as the default shell.The usage is as follows:$ singularity shellUSAGE: singularity (options) shell [container image] (options)Here we can see the default shell:singularity shell centos7.img Singularity: Invoking an interactive shell within container...Singularity centos7.img:~/Desktop> echo $SHELL/bin/shAdditionally any arguments passed to the Singularity command (after the container name) will be passed to the called shell within the container.Change your shellThe shell sub-command allows you to set or change the default shell which is used by using the --shell argument. As of Singularity version 2.2, you can also use the environment variable SINGULARITY_SHELL which will use that as your shell entry point into the container.BashThe correct way to do it:export SINGULARITY_SHELL="/bin/bash --norc"singularity shell centos7.img Singularity: Invoking an interactive shell within container...Singularity centos7.img:~/Desktop> echo $SHELL/bin/bash --norcDon’t do this, it can be confusing:$ export SINGULARITY_SHELL=/bin/bash$ singularity shell centos7.img Singularity: Invoking an interactive shell within container...# What? We are still on my Desktop? Actually no, but the uri says we are!vanessa@vanessa-ThinkPad-T460s:~/Desktop$ echo $SHELL/bin/bashDepending on your shell, you might also want the --noprofile flag. How can you learn more about a shell? Ask it for help, of course!Shell Help$ singularity shell centos7.img --helpSingularity: Invoking an interactive shell within container...GNU bash, version 4.2.46(1)-release-(x86_64-redhat-linux-gnu)Usage: /bin/bash [GNU long option] [option] ... /bin/bash [GNU long option] [option] script-file ...GNU long options: --debug --debugger --dump-po-strings --dump-strings --help --init-file --login --noediting --noprofile --norc --posix --protected --rcfile --rpm-requires --restricted --verbose --versionShell options: -irsD or -c command or -O shopt_option (invocation only) -abefhkmnptuvxBCHP or -o optionType `/bin/bash -c "help set"' for more information about shell options.Type `/bin/bash -c help' for more information about shell builtin commands.And thus we should be able to do:$ singularity shell centos7.img -c "echo hello world"Singularity: Invoking an interactive shell within container...hello world Previous Next Edit me Site last generated: Jul 26, 2017 ">
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<div id="toc"></div>
<h2 id="usage">Usage</h2>
<p>The <code class="highlighter-rouge">shell</code> Singularity sub-command will automatically spawn a shell within a container. The default and the only requirement of any Singularity container is that <code class="highlighter-rouge">/bin/sh</code> must be present, and thus <code class="highlighter-rouge">/bin/sh</code> is also used as the default shell.</p>
<p>The usage is as follows:</p>
<div class="language-bash highlighter-rouge"><pre class="highlight"><code><span class="gp">$ </span>singularity shell
USAGE: singularity <span class="o">(</span>options<span class="o">)</span> shell <span class="o">[</span>container image] <span class="o">(</span>options<span class="o">)</span>
</code></pre>
</div>
<p>Here we can see the default shell:</p>
<div class="language-bash highlighter-rouge"><pre class="highlight"><code>singularity shell centos7.img
Singularity: Invoking an interactive shell within container...
Singularity centos7.img:~/Desktop> <span class="nb">echo</span> <span class="nv">$SHELL</span>
/bin/sh
</code></pre>
</div>
<p>Additionally any arguments passed to the Singularity command (after the container name) will be passed to the called shell within the container.</p>
<h2 id="change-your-shell">Change your shell</h2>
<p>The shell sub-command allows you to set or change the default shell which is used by using the <code class="highlighter-rouge">--shell</code> argument. As of Singularity version 2.2, you can also use the environment variable <code class="highlighter-rouge">SINGULARITY_SHELL</code> which will use that as your shell entry point into the container.</p>
<h3 id="bash">Bash</h3>
<p>The correct way to do it:</p>
<div class="language-bash highlighter-rouge"><pre class="highlight"><code><span class="nb">export </span><span class="nv">SINGULARITY_SHELL</span><span class="o">=</span><span class="s2">"/bin/bash --norc"</span>
singularity shell centos7.img Singularity: Invoking an interactive shell within container...
Singularity centos7.img:~/Desktop> <span class="nb">echo</span> <span class="nv">$SHELL</span>
/bin/bash --norc
</code></pre>
</div>
<p>Don’t do this, it can be confusing:</p>
<div class="language-bash highlighter-rouge"><pre class="highlight"><code><span class="gp">$ </span><span class="nb">export </span><span class="nv">SINGULARITY_SHELL</span><span class="o">=</span>/bin/bash
<span class="gp">$ </span>singularity shell centos7.img
Singularity: Invoking an interactive shell within container...
<span class="c"># What? We are still on my Desktop? Actually no, but the uri says we are!</span>
<span class="gp">vanessa@vanessa-ThinkPad-T460s:~/Desktop$ </span><span class="nb">echo</span> <span class="nv">$SHELL</span>
/bin/bash
</code></pre>
</div>
<p>Depending on your shell, you might also want the <code class="highlighter-rouge">--noprofile</code> flag. How can you learn more about a shell? Ask it for help, of course!</p>
<h2 id="shell-help">Shell Help</h2>
<div class="language-bash highlighter-rouge"><pre class="highlight"><code><span class="gp">$ </span>singularity shell centos7.img --help
Singularity: Invoking an interactive shell within container...
GNU bash, version 4.2.46<span class="o">(</span>1<span class="o">)</span>-release-<span class="o">(</span>x86_64-redhat-linux-gnu<span class="o">)</span>
Usage: /bin/bash <span class="o">[</span>GNU long option] <span class="o">[</span>option] ...
/bin/bash <span class="o">[</span>GNU long option] <span class="o">[</span>option] script-file ...
GNU long options:
--debug
--debugger
--dump-po-strings
--dump-strings
--help
--init-file
--login
--noediting
--noprofile
--norc
--posix
--protected
--rcfile
--rpm-requires
--restricted
--verbose
--version
Shell options:
-irsD or -c <span class="nb">command </span>or -O shopt_option <span class="o">(</span>invocation only<span class="o">)</span>
-abefhkmnptuvxBCHP or -o option
Type <span class="sb">`</span>/bin/bash -c <span class="s2">"help set"</span><span class="s1">' for more information about shell options.
Type `/bin/bash -c help'</span> <span class="k">for </span>more information about shell <span class="nb">builtin </span>commands.
</code></pre>
</div>
<p>And thus we should be able to do:</p>
<div class="language-bash highlighter-rouge"><pre class="highlight"><code><span class="gp">$ </span>singularity shell centos7.img -c <span class="s2">"echo hello world"</span>
Singularity: Invoking an interactive shell within container...
hello world
</code></pre>
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