485 lines
19 KiB
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485 lines
19 KiB
HTML
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<a href="obitools-module.html">Package obitools</a> ::
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<a href="obitools.unit-module.html">Package unit</a> ::
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<a href="obitools.unit.obitools-module.html">Package obitools</a> ::
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Class BioseqTest
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<!-- ==================== CLASS DESCRIPTION ==================== -->
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<h1 class="epydoc">Class BioseqTest</h1><span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest">source code</a></span><br /><br />
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<td colspan="2" class="summary">
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<p class="indent-wrapped-lines"><b>Inherited from <code>unittest.TestCase</code></b>:
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<code><a href="exceptions.AssertionError-class.html">failureException</a></code>
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</p>
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</td>
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<!-- ==================== INSTANCE METHODS ==================== -->
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</td><td class="summary">
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<td><span class="summary-sig"><a href="obitools.unit.obitools.BioseqTest-class.html#setUp" class="summary-sig-name">setUp</a>(<span class="summary-sig-arg">self</span>)</span><br />
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Hook method for setting up the test fixture before exercising
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it.</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.setUp">source code</a></span>
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<span class="summary-type"> </span>
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</td><td class="summary">
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<td><span class="summary-sig"><a href="obitools.unit.obitools.BioseqTest-class.html#tearDown" class="summary-sig-name">tearDown</a>(<span class="summary-sig-arg">self</span>)</span><br />
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Hook method for deconstructing the test fixture after testing
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it.</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.tearDown">source code</a></span>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<tr>
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<td><span class="summary-sig"><a name="testIdAttribute"></a><span class="summary-sig-name">testIdAttribute</span>(<span class="summary-sig-arg">self</span>)</span><br />
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test if id attribute exists</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.testIdAttribute">source code</a></span>
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<span class="summary-type"> </span>
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</td><td class="summary">
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<td><span class="summary-sig"><a name="testIdValue"></a><span class="summary-sig-name">testIdValue</span>(<span class="summary-sig-arg">self</span>)</span><br />
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test if id attribute value is 'id1'</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.testIdValue">source code</a></span>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<tr>
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<td><span class="summary-sig"><a name="testDefinitionAttribute"></a><span class="summary-sig-name">testDefinitionAttribute</span>(<span class="summary-sig-arg">self</span>)</span><br />
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test if definition attribute exists</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.testDefinitionAttribute">source code</a></span>
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</td>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<tr>
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<td><span class="summary-sig"><a name="testSequenceIsLowerCase"></a><span class="summary-sig-name">testSequenceIsLowerCase</span>(<span class="summary-sig-arg">self</span>)</span><br />
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test if sequence is stored as lower case letter</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.testSequenceIsLowerCase">source code</a></span>
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</td>
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</td>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<tr>
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<td><span class="summary-sig"><a name="testSequenceQualifier"></a><span class="summary-sig-name">testSequenceQualifier</span>(<span class="summary-sig-arg">self</span>)</span><br />
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test if the extra qualifier is present and its value is three.</td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.testSequenceQualifier">source code</a></span>
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</table>
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</td>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<tr>
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<td><span class="summary-sig"><a name="testCreateSequenceQualifier"></a><span class="summary-sig-name">testCreateSequenceQualifier</span>(<span class="summary-sig-arg">self</span>)</span></td>
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<td align="right" valign="top">
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<span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.testCreateSequenceQualifier">source code</a></span>
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</td>
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</table>
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</td>
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<td colspan="2" class="summary">
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<p class="indent-wrapped-lines"><b>Inherited from <code>unittest.TestCase</code></b>:
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<code>__call__</code>,
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<code>__init__</code>,
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<code>__repr__</code>,
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<code>__str__</code>,
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<code>assertAlmostEqual</code>,
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<code>assertAlmostEquals</code>,
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<code>assertEqual</code>,
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<code>assertEquals</code>,
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<code>assertFalse</code>,
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<code>assertNotAlmostEqual</code>,
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<code>assertNotAlmostEquals</code>,
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<code>assertNotEqual</code>,
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<code>assertNotEquals</code>,
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<code>assertRaises</code>,
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<code>assertTrue</code>,
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<code>assert_</code>,
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<code>countTestCases</code>,
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<code>debug</code>,
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<code>defaultTestResult</code>,
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<code>fail</code>,
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<code>failIf</code>,
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<code>failIfAlmostEqual</code>,
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<code>failIfEqual</code>,
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<code>failUnless</code>,
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<code>failUnlessAlmostEqual</code>,
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<code>failUnlessEqual</code>,
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<code>failUnlessRaises</code>,
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<code>id</code>,
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<code>run</code>,
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<code>shortDescription</code>
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</p>
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<div class="private"> <p class="indent-wrapped-lines"><b>Inherited from <code>unittest.TestCase</code></b> (private):
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<code>_exc_info</code>
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</p></div>
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<p class="indent-wrapped-lines"><b>Inherited from <code>object</code></b>:
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<code>__delattr__</code>,
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<code>__getattribute__</code>,
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<code>__hash__</code>,
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<code>__new__</code>,
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<code>__reduce__</code>,
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<code>__reduce_ex__</code>,
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<code>__setattr__</code>
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</p>
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</td>
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</tr>
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</table>
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<!-- ==================== CLASS VARIABLES ==================== -->
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<a name="section-ClassVariables"></a>
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<table class="summary" border="1" cellpadding="3"
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cellspacing="0" width="100%" bgcolor="white">
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<tr bgcolor="#70b0f0" class="table-header">
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<td colspan="2" class="table-header">
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<table border="0" cellpadding="0" cellspacing="0" width="100%">
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<tr valign="top">
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<td align="left"><span class="table-header">Class Variables</span></td>
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<td align="right" valign="top"
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><span class="options">[<a href="#section-ClassVariables"
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class="privatelink" onclick="toggle_private();"
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>hide private</a>]</span></td>
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</tr>
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</table>
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</td>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<a name="sequenceId"></a><span class="summary-name">sequenceId</span> = <code title="'id1'"><code class="variable-quote">'</code><code class="variable-string">id1</code><code class="variable-quote">'</code></code>
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</td>
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</tr>
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<tr>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<a name="sequenceDefinition"></a><span class="summary-name">sequenceDefinition</span> = <code title="'sequence definition'"><code class="variable-quote">'</code><code class="variable-string">sequence definition</code><code class="variable-quote">'</code></code>
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</td>
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</tr>
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<tr>
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<td width="15%" align="right" valign="top" class="summary">
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<span class="summary-type"> </span>
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</td><td class="summary">
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<a name="sequenceQualifier"></a><span class="summary-name">sequenceQualifier</span> = <code title="{'extra': 3}"><code class="variable-group">{</code><code class="variable-quote">'</code><code class="variable-string">extra</code><code class="variable-quote">'</code><code class="variable-op">: </code>3<code class="variable-group">}</code></code>
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</td>
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</tr>
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</table>
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<!-- ==================== PROPERTIES ==================== -->
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<a name="section-Properties"></a>
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<table class="summary" border="1" cellpadding="3"
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cellspacing="0" width="100%" bgcolor="white">
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<tr bgcolor="#70b0f0" class="table-header">
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<td colspan="2" class="table-header">
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<table border="0" cellpadding="0" cellspacing="0" width="100%">
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<tr valign="top">
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<td align="left"><span class="table-header">Properties</span></td>
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<td align="right" valign="top"
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><span class="options">[<a href="#section-Properties"
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class="privatelink" onclick="toggle_private();"
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>hide private</a>]</span></td>
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</tr>
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</table>
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</td>
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</tr>
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<tr>
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<td colspan="2" class="summary">
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<p class="indent-wrapped-lines"><b>Inherited from <code>object</code></b>:
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<code>__class__</code>
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</p>
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</td>
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</tr>
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</table>
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<!-- ==================== METHOD DETAILS ==================== -->
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<a name="section-MethodDetails"></a>
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<table class="details" border="1" cellpadding="3"
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cellspacing="0" width="100%" bgcolor="white">
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<tr bgcolor="#70b0f0" class="table-header">
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<td colspan="2" class="table-header">
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<table border="0" cellpadding="0" cellspacing="0" width="100%">
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<tr valign="top">
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<td align="left"><span class="table-header">Method Details</span></td>
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<td align="right" valign="top"
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><span class="options">[<a href="#section-MethodDetails"
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class="privatelink" onclick="toggle_private();"
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>hide private</a>]</span></td>
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</tr>
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</table>
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</td>
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</tr>
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</table>
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<a name="setUp"></a>
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<div>
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<table class="details" border="1" cellpadding="3"
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cellspacing="0" width="100%" bgcolor="white">
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<tr><td>
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<tr valign="top"><td>
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<h3 class="epydoc"><span class="sig"><span class="sig-name">setUp</span>(<span class="sig-arg">self</span>)</span>
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</h3>
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</td><td align="right" valign="top"
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><span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.setUp">source code</a></span>
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</td>
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</table>
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Hook method for setting up the test fixture before exercising it.
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<dl class="fields">
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<dt>Overrides:
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unittest.TestCase.setUp
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<dd><em class="note">(inherited documentation)</em></dd>
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</dt>
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</dl>
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</td></tr></table>
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</div>
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<a name="tearDown"></a>
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<div>
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<table class="details" border="1" cellpadding="3"
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cellspacing="0" width="100%" bgcolor="white">
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<tr><td>
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<table width="100%" cellpadding="0" cellspacing="0" border="0">
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<tr valign="top"><td>
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<h3 class="epydoc"><span class="sig"><span class="sig-name">tearDown</span>(<span class="sig-arg">self</span>)</span>
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</h3>
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</td><td align="right" valign="top"
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><span class="codelink"><a href="obitools.unit.obitools-pysrc.html#BioseqTest.tearDown">source code</a></span>
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Hook method for deconstructing the test fixture after testing it.
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<dl class="fields">
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<dt>Overrides:
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unittest.TestCase.tearDown
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<dd><em class="note">(inherited documentation)</em></dd>
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