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<article id="content">
<header>
<h1 class="title">Module <code>test_pk_two_comp</code></h1>
</header>
<section id="section-intro">
<p>Created on Thu Feb 27 15:06:08 2020</p>
<p>@author: Ethan</p>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">&#34;&#34;&#34;
Created on Thu Feb 27 15:06:08 2020
@author: Ethan
&#34;&#34;&#34;
import numpy as np
import pytest
import pathlib
from pk_two_comp import pk_two_comp
def test_pk1_init():
&#34;&#34;&#34;Tests initialization and default values&#34;&#34;&#34;
pk1 = pk_two_comp()
#Test directory is same as one given
assert pk1.filename == &#39;CTPERF005_stress.csv&#39;
assert pk1.flow == 1/60
assert pk1.visf == 0.15
assert pk1.baseline == 60
assert pk1.perm_surf == 0.35 # Initial concentration of tracer in plasma
assert pk1.tmax == 6.5 #Time in seconds
assert pk1.ymax == 250 #Time step
assert pk1.alpha == 2.5 # Alpha for gamma distribution
assert pk1.delay == 0
def test_pk1_diff_file():
&#34;&#34;&#34;Tests initialization given non-default file&#34;&#34;&#34;
pk2 = pk_two_comp(filename=&#39;CTPERF006_stress.csv&#39;)
#Test directory is same as one given
assert pk2.wd == pathlib.Path(&#39;Data&#39;).absolute()
assert pk2.filename == &#39;CTPERF006_stress.csv&#39;
assert pk2.flow == 1/60
assert pk2.visf == 0.15
assert pk2.baseline == 60
assert pk2.perm_surf == 0.35 # Initial concentration of tracer in plasma
assert pk2.tmax == 6.5 #Time in seconds
assert pk2.ymax == 250 #Time step
assert pk2.alpha == 2.5 # Alpha for gamma distribution
assert pk2.delay == 0
def test_pkoptimizer_init_badfile():
&#34;&#34;&#34;Tests inputting non-string filename&#34;&#34;&#34;
try:
pk3 = pk_two_comp(3)
except ValueError:
assert &#39;Filename must be a string&#39;
try:
pk3 = pk_two_comp([2, 3])
except ValueError:
assert &#39;Filename must be a string&#39;
try:
pk3 = pk_two_comp({1:&#39;foo&#39;})
except ValueError:
assert &#39;Filename must be a string&#39;
def test_get_data():
&#34;&#34;&#34;Tests reading in data&#34;&#34;&#34;
pk3 = pk_two_comp()
pk3.get_data(pk3.filename)
assert pk3.time == [0.0, 2.060608000000002, 4.169921999999929, 6.3469239999999445,
8.533386999999948, 10.716613999999936, 12.853088999999954,
14.966369999999984, 17.076660999999945, 19.161744,
21.249634000000015, 23.319885999999997]
assert pk3.aorta == [0.0, 79.0, 197.0, 235.0, 253.0, 200.0, 127.0, 70.0, 41.0, 35.0, 36.0, 44.0]
assert pk3.myo == [62.0, 61.0, 69.0, 91.0, 97.0, 102.0, 104.0, 104.0, 100.0, 95.0, 92.0, 88.0]
def test_dne_file():
&#34;&#34;&#34;Tests does not exist file error&#34;&#34;&#34;
pk4 = pk_two_comp(filename = &#39;ajagea&#39;)
try:
pk4.main()
except ValueError:
assert &#34;Input file does not exist: {0}. I&#39;ll quit now.&#34;
def test_output_mse():
&#34;&#34;&#34;Tests that the aorta/output MSE is calculated correctly&#34;&#34;&#34;
pk5 = pk_two_comp(filename=&#39;CTPERF006_rest.csv&#39;)
pk5.get_data(pk5.filename)
assert pk5.output_mse([13, 223, 10]) == 100000
assert pk5.output_mse([-200, 13, 10]) == 100000
assert pk5.output_mse([123, .33, .20]) == 100000
assert pk5.output_mse([3, 23, 10]) == 8325.489573778586
assert pk5.output_mse([13, 223, -10]) == 100000
assert pk5.output_mse([13, -223, 10]) == 100000
assert pk5.output_mse([.0013, .62, 50]) == 490.78173062264165
def test_main():
&#34;&#34;&#34;Tests main, will calculate all optimal properties correctly&#34;&#34;&#34;
pk6 = pk_two_comp(filename=&#39;CTPERF005_rest.csv&#39;)
pk6.main()
assert pk6.ymax == 403.23
assert pk6.tmax == 12.43
assert pk6.alpha == 9.45
assert pk6.delay == 0
assert pk6.flow == .0052
assert pk6.visf == 0.8452
assert pk6.baseline == 46.5288
</code></pre>
</details>
</section>
<section>
</section>
<section>
</section>
<section>
<h2 class="section-title" id="header-functions">Functions</h2>
<dl>
<dt id="test_pk_two_comp.test_dne_file"><code class="name flex">
<span>def <span class="ident">test_dne_file</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests does not exist file error</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_dne_file():
&#34;&#34;&#34;Tests does not exist file error&#34;&#34;&#34;
pk4 = pk_two_comp(filename = &#39;ajagea&#39;)
try:
pk4.main()
except ValueError:
assert &#34;Input file does not exist: {0}. I&#39;ll quit now.&#34;</code></pre>
</details>
</dd>
<dt id="test_pk_two_comp.test_get_data"><code class="name flex">
<span>def <span class="ident">test_get_data</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests reading in data</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_get_data():
&#34;&#34;&#34;Tests reading in data&#34;&#34;&#34;
pk3 = pk_two_comp()
pk3.get_data(pk3.filename)
assert pk3.time == [0.0, 2.060608000000002, 4.169921999999929, 6.3469239999999445,
8.533386999999948, 10.716613999999936, 12.853088999999954,
14.966369999999984, 17.076660999999945, 19.161744,
21.249634000000015, 23.319885999999997]
assert pk3.aorta == [0.0, 79.0, 197.0, 235.0, 253.0, 200.0, 127.0, 70.0, 41.0, 35.0, 36.0, 44.0]
assert pk3.myo == [62.0, 61.0, 69.0, 91.0, 97.0, 102.0, 104.0, 104.0, 100.0, 95.0, 92.0, 88.0]</code></pre>
</details>
</dd>
<dt id="test_pk_two_comp.test_main"><code class="name flex">
<span>def <span class="ident">test_main</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests main, will calculate all optimal properties correctly</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_main():
&#34;&#34;&#34;Tests main, will calculate all optimal properties correctly&#34;&#34;&#34;
pk6 = pk_two_comp(filename=&#39;CTPERF005_rest.csv&#39;)
pk6.main()
assert pk6.ymax == 403.23
assert pk6.tmax == 12.43
assert pk6.alpha == 9.45
assert pk6.delay == 0
assert pk6.flow == .0052
assert pk6.visf == 0.8452
assert pk6.baseline == 46.5288</code></pre>
</details>
</dd>
<dt id="test_pk_two_comp.test_output_mse"><code class="name flex">
<span>def <span class="ident">test_output_mse</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests that the aorta/output MSE is calculated correctly</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_output_mse():
&#34;&#34;&#34;Tests that the aorta/output MSE is calculated correctly&#34;&#34;&#34;
pk5 = pk_two_comp(filename=&#39;CTPERF006_rest.csv&#39;)
pk5.get_data(pk5.filename)
assert pk5.output_mse([13, 223, 10]) == 100000
assert pk5.output_mse([-200, 13, 10]) == 100000
assert pk5.output_mse([123, .33, .20]) == 100000
assert pk5.output_mse([3, 23, 10]) == 8325.489573778586
assert pk5.output_mse([13, 223, -10]) == 100000
assert pk5.output_mse([13, -223, 10]) == 100000
assert pk5.output_mse([.0013, .62, 50]) == 490.78173062264165</code></pre>
</details>
</dd>
<dt id="test_pk_two_comp.test_pk1_diff_file"><code class="name flex">
<span>def <span class="ident">test_pk1_diff_file</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests initialization given non-default file</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_pk1_diff_file():
&#34;&#34;&#34;Tests initialization given non-default file&#34;&#34;&#34;
pk2 = pk_two_comp(filename=&#39;CTPERF006_stress.csv&#39;)
#Test directory is same as one given
assert pk2.wd == pathlib.Path(&#39;Data&#39;).absolute()
assert pk2.filename == &#39;CTPERF006_stress.csv&#39;
assert pk2.flow == 1/60
assert pk2.visf == 0.15
assert pk2.baseline == 60
assert pk2.perm_surf == 0.35 # Initial concentration of tracer in plasma
assert pk2.tmax == 6.5 #Time in seconds
assert pk2.ymax == 250 #Time step
assert pk2.alpha == 2.5 # Alpha for gamma distribution
assert pk2.delay == 0</code></pre>
</details>
</dd>
<dt id="test_pk_two_comp.test_pk1_init"><code class="name flex">
<span>def <span class="ident">test_pk1_init</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests initialization and default values</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_pk1_init():
&#34;&#34;&#34;Tests initialization and default values&#34;&#34;&#34;
pk1 = pk_two_comp()
#Test directory is same as one given
assert pk1.filename == &#39;CTPERF005_stress.csv&#39;
assert pk1.flow == 1/60
assert pk1.visf == 0.15
assert pk1.baseline == 60
assert pk1.perm_surf == 0.35 # Initial concentration of tracer in plasma
assert pk1.tmax == 6.5 #Time in seconds
assert pk1.ymax == 250 #Time step
assert pk1.alpha == 2.5 # Alpha for gamma distribution
assert pk1.delay == 0</code></pre>
</details>
</dd>
<dt id="test_pk_two_comp.test_pkoptimizer_init_badfile"><code class="name flex">
<span>def <span class="ident">test_pkoptimizer_init_badfile</span></span>(<span>)</span>
</code></dt>
<dd>
<section class="desc"><p>Tests inputting non-string filename</p></section>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def test_pkoptimizer_init_badfile():
&#34;&#34;&#34;Tests inputting non-string filename&#34;&#34;&#34;
try:
pk3 = pk_two_comp(3)
except ValueError:
assert &#39;Filename must be a string&#39;
try:
pk3 = pk_two_comp([2, 3])
except ValueError:
assert &#39;Filename must be a string&#39;
try:
pk3 = pk_two_comp({1:&#39;foo&#39;})
except ValueError:
assert &#39;Filename must be a string&#39;</code></pre>
</details>
</dd>
</dl>
</section>
<section>
</section>
</article>
<nav id="sidebar">
<h1>Index</h1>
<div class="toc">
<ul></ul>
</div>
<ul id="index">
<li><h3><a href="#header-functions">Functions</a></h3>
<ul class="">
<li><code><a title="test_pk_two_comp.test_dne_file" href="#test_pk_two_comp.test_dne_file">test_dne_file</a></code></li>
<li><code><a title="test_pk_two_comp.test_get_data" href="#test_pk_two_comp.test_get_data">test_get_data</a></code></li>
<li><code><a title="test_pk_two_comp.test_main" href="#test_pk_two_comp.test_main">test_main</a></code></li>
<li><code><a title="test_pk_two_comp.test_output_mse" href="#test_pk_two_comp.test_output_mse">test_output_mse</a></code></li>
<li><code><a title="test_pk_two_comp.test_pk1_diff_file" href="#test_pk_two_comp.test_pk1_diff_file">test_pk1_diff_file</a></code></li>
<li><code><a title="test_pk_two_comp.test_pk1_init" href="#test_pk_two_comp.test_pk1_init">test_pk1_init</a></code></li>
<li><code><a title="test_pk_two_comp.test_pkoptimizer_init_badfile" href="#test_pk_two_comp.test_pkoptimizer_init_badfile">test_pkoptimizer_init_badfile</a></code></li>
</ul>
</li>
</ul>
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