generated from enryH/notes_template
-
Notifications
You must be signed in to change notification settings - Fork 0
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
- Loading branch information
Showing
5 changed files
with
74 additions
and
7 deletions.
There are no files selected for viewing
Binary file not shown.
Binary file not shown.
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
|
|
@@ -110,18 +110,51 @@ Exercise: | |
|
|
||
|
|
||
|
|
||
| Say you have identified a container that you want to run with your scrip, but a key piece of software is missing. | ||
| We can modify the container by adding some lines ot code to the Dockerfile which is used to generate the docker image used to spin up the docker container which we will use. | ||
|
|
||
|
|
||
| Excercise: | ||
| make your own dockerfile inspired by the one above and build it | ||
| Not all tools needed can be installed with `apt-get` and we may need to download from a particular URL, luckily we know how to make an image with curl installed. | ||
|
|
||
| we can add the following lines in the bottom of our dockerfile to download and extract the tool `salmon` | ||
|
|
||
| ``` | ||
| RUN curl -sSL https://github.com/COMBINE-lab/salmon/releases/download/v1.5.2/salmon-1.5.2_linux_x86_64.tar.gz | tar xz \ | ||
| && mv /salmon-*/bin/* /usr/bin/ \ | ||
| && mv /salmon-*/lib/* /usr/lib/ | ||
| ``` | ||
|
|
||
| Exercise: | ||
| * Build an image with `salmon` installed. Do this by updating your `Dockerfile` accordingly, and build it with the same command as before. | ||
| * Check that you have your new image available | ||
|
|
||
| Say you have identified a container that you want to run with your scrip, but a key piece of software is missing. | ||
| We can modify the container by adding some lines ot code to the Dockerfile which is used to generate the docker image used to spin up the docker container which we will use. | ||
|
|
||
|
|
||
| Solution: | ||
| Update the `Dockerfile` to have the following content: | ||
| ``` | ||
| FROM debian:bullseye-slim | ||
| LABEL image.author.name="Your Name Here" | ||
| LABEL image.author.email="[email protected]" | ||
| RUN apt-get update && apt-get install -y curl | ||
| ENV PATH=$PATH:/usr/games/ | ||
| RUN curl -sSL https://github.com/COMBINE-lab/salmon/releases/download/v1.5.2/salmon-1.5.2_linux_x86_64.tar.gz | tar xz \ | ||
| && mv /salmon-*/bin/* /usr/bin/ \ | ||
| && mv /salmon-*/lib/* /usr/lib/ | ||
| ``` | ||
|
|
||
| then run the command | ||
| ``` | ||
| docker build -t my-image . | ||
| ``` | ||
|
|
||
| finally confirm with | ||
| ``` | ||
| docker images | ||
| ``` | ||
|
|
||
|
|
||
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
|
|
@@ -405,10 +405,44 @@ <h1>Docker Hands-on beginners training<a class="headerlink" href="#docker-hands- | |
| <li><p>Build your docker file to an image</p></li> | ||
| <li><p>run the command <code class="docutils literal notranslate"><span class="pre">docker</span> <span class="pre">run</span> <span class="pre"><my-image-name></span> <span class="pre">cowsay</span> <span class="pre">'Hej</span> <span class="pre">DTU!'</span></code></p></li> | ||
| </ul> | ||
| <p>Excercise: | ||
| make your own dockerfile inspired by the one above and build it</p> | ||
| <p>Say you have identified a container that you want to run with your scrip, but a key piece of software is missing. | ||
| We can modify the container by adding some lines ot code to the Dockerfile which is used to generate the docker image used to spin up the docker container which we will use.</p> | ||
| <p>Not all tools needed can be installed with <code class="docutils literal notranslate"><span class="pre">apt-get</span></code> and we may need to download from a particular URL, luckily we know how to make an image with curl installed.</p> | ||
| <p>we can add the following lines in the bottom of our dockerfile to download and extract the tool <code class="docutils literal notranslate"><span class="pre">salmon</span></code></p> | ||
| <div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">RUN</span> <span class="n">curl</span> <span class="o">-</span><span class="n">sSL</span> <span class="n">https</span><span class="p">:</span><span class="o">//</span><span class="n">github</span><span class="o">.</span><span class="n">com</span><span class="o">/</span><span class="n">COMBINE</span><span class="o">-</span><span class="n">lab</span><span class="o">/</span><span class="n">salmon</span><span class="o">/</span><span class="n">releases</span><span class="o">/</span><span class="n">download</span><span class="o">/</span><span class="n">v1</span><span class="mf">.5.2</span><span class="o">/</span><span class="n">salmon</span><span class="o">-</span><span class="mf">1.5.2</span><span class="n">_linux_x86_64</span><span class="o">.</span><span class="n">tar</span><span class="o">.</span><span class="n">gz</span> <span class="o">|</span> <span class="n">tar</span> <span class="n">xz</span> \ | ||
| <span class="o">&&</span> <span class="n">mv</span> <span class="o">/</span><span class="n">salmon</span><span class="o">-*/</span><span class="nb">bin</span><span class="o">/*</span> <span class="o">/</span><span class="n">usr</span><span class="o">/</span><span class="nb">bin</span><span class="o">/</span> \ | ||
| <span class="o">&&</span> <span class="n">mv</span> <span class="o">/</span><span class="n">salmon</span><span class="o">-*/</span><span class="n">lib</span><span class="o">/*</span> <span class="o">/</span><span class="n">usr</span><span class="o">/</span><span class="n">lib</span><span class="o">/</span> | ||
| </pre></div> | ||
| </div> | ||
| <p>Exercise:</p> | ||
| <ul class="simple"> | ||
| <li><p>Build an image with <code class="docutils literal notranslate"><span class="pre">salmon</span></code> installed. Do this by updating your <code class="docutils literal notranslate"><span class="pre">Dockerfile</span></code> accordingly, and build it with the same command as before.</p></li> | ||
| <li><p>Check that you have your new image available</p></li> | ||
| </ul> | ||
| <p>Solution: | ||
| Update the <code class="docutils literal notranslate"><span class="pre">Dockerfile</span></code> to have the following content:</p> | ||
| <div class="highlight-default notranslate"><div class="highlight"><pre><span></span>FROM debian:bullseye-slim | ||
|
|
||
| LABEL image.author.name="Your Name Here" | ||
| LABEL image.author.email="[email protected]" | ||
|
|
||
| RUN apt-get update && apt-get install -y curl | ||
|
|
||
| ENV PATH=$PATH:/usr/games/ | ||
|
|
||
| RUN curl -sSL https://github.com/COMBINE-lab/salmon/releases/download/v1.5.2/salmon-1.5.2_linux_x86_64.tar.gz | tar xz \ | ||
| && mv /salmon-*/bin/* /usr/bin/ \ | ||
| && mv /salmon-*/lib/* /usr/lib/ | ||
| </pre></div> | ||
| </div> | ||
| <p>then run the command</p> | ||
| <div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">docker</span> <span class="n">build</span> <span class="o">-</span><span class="n">t</span> <span class="n">my</span><span class="o">-</span><span class="n">image</span> <span class="o">.</span> | ||
| </pre></div> | ||
| </div> | ||
| <p>finally confirm with</p> | ||
| <div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">docker</span> <span class="n">images</span> | ||
| </pre></div> | ||
| </div> | ||
| </section> | ||
|
|
||
|
|
||
|
|
||
Oops, something went wrong.