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ljvmiranda921/gym-lattice: Minor Release (v0.1.1)

Lj Miranda


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  <identifier identifierType="DOI">10.5281/zenodo.1220163</identifier>
  <creators>
    <creator>
      <creatorName>Lj Miranda</creatorName>
      <affiliation>Waseda University</affiliation>
    </creator>
  </creators>
  <titles>
    <title>ljvmiranda921/gym-lattice: Minor Release (v0.1.1)</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2018</publicationYear>
  <dates>
    <date dateType="Issued">2018-04-18</date>
  </dates>
  <resourceType resourceTypeGeneral="Software"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/1220163</alternateIdentifier>
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  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsSupplementTo">https://github.com/ljvmiranda921/gym-lattice/tree/v0.1.1</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.1214967</relatedIdentifier>
  </relatedIdentifiers>
  <version>v0.1.1</version>
  <rightsList>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">Minor Release (v0.1.1)
&lt;p&gt;This is a minor release of &lt;code&gt;gym-lattice&lt;/code&gt;, an HP 2D-Lattice environment with a Gym-like API for the protein folding problem. This release focuses on fixing the &lt;code&gt;compute_free_energy()&lt;/code&gt; function and improving the documentation in the &lt;code&gt;README&lt;/code&gt;.&lt;/p&gt;
Fixing the &lt;code&gt;compute_free_energy()&lt;/code&gt; function
&lt;p&gt;As it turns out, the previous implementation of the free energy computation includes the adjacent H-H pairs even if they are neighbors in the sequence. The standard computation should not include that. This release fixes the problem and updated the expected values during testing.&lt;/p&gt;
Better documentation in the &lt;code&gt;README&lt;/code&gt;.
&lt;p&gt;Instead of manually building assets in a graphical software, all images are now created using LaTeX. We use the &lt;code&gt;standalone&lt;/code&gt; package to generate PNG files from our TeX files. This gives a cleaner version of our images, and hopefully a better representation of our problem space.&lt;/p&gt;</description>
  </descriptions>
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