Answers.Body: <ol>
  <li>Download a release (Hammock_v_1.2.0.7z) from <a href="https://github.com/krejciadam/hammock/releases" rel="nofollow noreferrer">https://github.com/krejciadam/hammock/releases</a></li>
  <li>Unzip</li>
  <li>To run the first example:</li>
  </ol>
  <pre><code>cd /your_path/Hammock_v_1.2.0/examples/MUSI/
  java -jar ../../dist/Hammock.jar full -i musi.fa
  </code></pre>
  <p>As mentioned in the comments, it's in the manual and any further issues need more information (errors etc).</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-03-12T09:15:42.240Z
Answers.LastActivityDate: 2021-03-12T09:15:42.240Z
Answers.UserDisplayName: Michael
Answers.Body: <p><em>Answer from @ram-rs, converted from comment:</em></p>
  <p>There's a Hammock.jar file - there' no need to compile Hammock, although they recommend compiling dependencies. Have you tried running java -jar dist/Hammock.jar --help? Follow their steps from Example 1 - it should work.</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-05-13T03:12:01.930Z
Answers.LastActivityDate: 2021-05-13T03:12:01.930Z
Answers.UserDisplayName: gringer
Body: <p>I'm working with phage peptides libraries. Currently I'm analysing a massive data set from phage selection, NGS readout, preprocessed already (fasta file). I want to analyse the sequences to cluster peptides according to their consensus motifs. I found that Hammock may be helpful to do this.</p>
  <p>Here is the GitHub repo for Hammock: <a href="https://github.com/krejciadam/hammock" rel="nofollow noreferrer">https://github.com/krejciadam/hammock</a>. I downloaded the master, unpacked it, but I don't know how to use it.</p>
  <p>I guess I need to compile, but I have no idea what files need to be compiled, how to do it, what software I need use to compile etc.</p>
  <p>I work with Mac/terminal.</p>
  
Tags: <clustering><software-installation>
Title: How do I install hammock?
ThreadText: # How do I install hammock?
  
  (Asked by: username_0 on 2021-03-11)
  
  I'm working with phage peptides libraries. Currently I'm analysing a massive data set from phage selection, NGS readout, preprocessed already (fasta file). I want to analyse the sequences to cluster peptides according to their consensus motifs. I found that Hammock may be helpful to do this.
  
  Here is the GitHub repo for Hammock: <https://github.com/krejciadam/hammock>. I downloaded the master, unpacked it, but I don't know how to use it.
  
  I guess I need to compile, but I have no idea what files need to be compiled, how to do it, what software I need use to compile etc.
  
  I work with Mac/terminal.
  
  **Tags:** clustering, software-installation
  
  
  ---
  
  ## 2 answers
  
  ### Answer by username_1 on 2021-03-12. Score: 2
  
  1. Download a release (Hammock\_v\_1.2.0.7z) from <https://github.com/krejciadam/hammock/releases>
  2. Unzip
  3. To run the first example:
  
  ```
  cd /your_path/Hammock_v_1.2.0/examples/MUSI/
  java -jar ../../dist/Hammock.jar full -i musi.fa
  
  ```
  
  As mentioned in the comments, it's in the manual and any further issues need more information (errors etc).
  
  
  ---
  
  ### Answer by username_2 on 2021-05-13. Score: 0
  
  *Answer from @ram-rs, converted from comment:*
  
  There's a Hammock.jar file - there' no need to compile Hammock, although they recommend compiling dependencies. Have you tried running java -jar dist/Hammock.jar --help? Follow their steps from Example 1 - it should work.
  
  
  ---
  
  