Mercurial > repos > goeckslab > pycaret_predict

annotate utils.py @ 8:1aed7d47c5ec draft default tip

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planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
author goeckslab
date Fri, 25 Jul 2025 19:02:32 +0000
parents a32ff7201629
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
goeckslab
parents:
diff changeset
1 import base64
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
goeckslab
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2 import logging
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1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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3 from typing import Optional
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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4
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0314dad38aaa planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit ff6d674ecc83db933153b797ef4dbde17f07b10e
goeckslab
parents: 0
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5 import numpy as np
0314dad38aaa planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit ff6d674ecc83db933153b797ef4dbde17f07b10e
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6
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
goeckslab
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7 logging.basicConfig(level=logging.DEBUG)
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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8 LOG = logging.getLogger(__name__)
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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9
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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10
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1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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11 def get_html_template() -> str:
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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12 return """
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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13 <html>
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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14 <head>
6
a32ff7201629 planemo upload for repository https://github.com/goeckslab/gleam commit 06c0da44ac93256dfb616a6b40276b5485a71e8e
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15 <meta charset="UTF-8">
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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16 <title>Model Training Report</title>
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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17 <style>
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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18 body {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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19 font-family: Arial, sans-serif;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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20 margin: 0;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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21 padding: 20px;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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22 background-color: #f4f4f4;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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23 }
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1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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24 /* allow horizontal scrolling if content overflows */
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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25 .container {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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26 max-width: 800px;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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27 margin: auto;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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28 background: white;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
goeckslab
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29 padding: 20px;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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30 box-shadow: 0 0 10px rgba(0, 0, 0, 0.1);
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1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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31 overflow-x: auto;
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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32 }
8
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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33
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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34 h1 {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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35 text-align: center;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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36 color: #333;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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37 }
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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38 h2 {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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39 border-bottom: 2px solid #4CAF50;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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40 color: #4CAF50;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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41 padding-bottom: 5px;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
goeckslab
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42 }
8
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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43
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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44 /* wrapper for tables to allow individual horizontal scroll */
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
parents: 6
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45 .table-wrapper {
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
parents: 6
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46 overflow-x: auto;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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47 margin: 1rem 0;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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48 }
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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49
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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50 /* revert table styling to full borders */
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1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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51 table {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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52 width: 100%;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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53 border-collapse: collapse;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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54 margin: 20px 0;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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55 }
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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56 table, th, td {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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57 border: 1px solid #ddd;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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58 }
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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59 th, td {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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60 padding: 8px;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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61 text-align: left;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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62 }
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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63 th {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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64 background-color: #4CAF50;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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65 color: white;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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66 }
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67
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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68 .plot {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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69 text-align: center;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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70 margin: 20px 0;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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71 }
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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72 .plot img {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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73 max-width: 100%;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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74 height: auto;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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75 }
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1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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76
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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77 .tabs {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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78 display: flex;
8
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79 align-items: center;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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80 border-bottom: 2px solid #ccc;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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81 margin-bottom: 1rem;
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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82 }
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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83 .tab {
8
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84 padding: 10px 20px;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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85 cursor: pointer;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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diff changeset
86 border: 1px solid #ccc;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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diff changeset
87 border-bottom: none;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
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diff changeset
88 background: #f9f9f9;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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diff changeset
89 margin-right: 5px;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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90 border-top-left-radius: 8px;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
goeckslab
parents: 6
diff changeset
91 border-top-right-radius: 8px;
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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92 }
8
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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93 .tab.active {
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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parents: 6
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94 background: white;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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95 font-weight: bold;
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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96 }
8
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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97
0
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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98 .tab-content {
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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99 display: none;
1f20fe57fdee planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit d79b0f722b7d09505a526d1a4332f87e548a3df1
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100 padding: 20px;
8
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101 border: 1px solid #ccc;
0
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102 border-top: none;
8
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103 background: white;
0
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104 }
8
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105 .tab-content.active {
0
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106 display: block;
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107 }
8
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108
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diff changeset
109 .help-btn {
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110 margin-left: auto;
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111 padding: 6px 12px;
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112 font-size: 0.9rem;
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113 border: 1px solid #4CAF50;
1aed7d47c5ec planemo upload for repository https://github.com/goeckslab/gleam commit 8112548ac44b7a4769093d76c722c8fcdeaaef54
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114 border-radius: 4px;
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115 background: #4CAF50;
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116 color: white;
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diff changeset
117 cursor: pointer;
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118 }
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119
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120 /* sortable table header arrows */
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121 table.sortable th {
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122 position: relative;
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123 padding-right: 20px; /* room for the arrow */
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124 cursor: pointer;
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125 }
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126 table.sortable th::after {
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127 content: '↕';
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128 position: absolute;
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129 right: 8px;
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130 opacity: 0.4;
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131 transition: opacity 0.2s;
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132 }
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133 table.sortable th:hover::after {
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134 opacity: 0.7;
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135 }
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136 table.sortable th.sorted-asc::after {
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137 content: '↑';
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138 opacity: 1;
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139 }
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140 table.sortable th.sorted-desc::after {
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141 content: '↓';
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142 opacity: 1;
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143 }
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144 </style>
0
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145 </head>
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146 <body>
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147 <div class="container">
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148 """
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149
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150
8
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151 def get_html_closing() -> str:
0
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152 return """
8
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153 </div>
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154 <script>
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155 document.addEventListener('DOMContentLoaded', () => {
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156 document.querySelectorAll('table.sortable').forEach(table => {
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157 const getCellValue = (row, idx) =>
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158 row.children[idx].innerText.trim() || '';
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159
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diff changeset
160 const comparer = (idx, asc) => (a, b) => {
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161 const v1 = getCellValue(asc ? a : b, idx);
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162 const v2 = getCellValue(asc ? b : a, idx);
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163 const n1 = parseFloat(v1), n2 = parseFloat(v2);
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164 if (!isNaN(n1) && !isNaN(n2)) return n1 - n2;
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165 return v1.localeCompare(v2);
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166 };
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167
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diff changeset
168 table.querySelectorAll('th').forEach((th, idx) => {
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169 let asc = true;
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diff changeset
170 th.addEventListener('click', () => {
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171 // sort rows
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diff changeset
172 const tbody = table.tBodies[0];
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173 Array.from(tbody.rows)
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174 .sort(comparer(idx, asc))
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175 .forEach(row => tbody.appendChild(row));
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176 // update arrow classes
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177 table.querySelectorAll('th').forEach(h => {
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diff changeset
178 h.classList.remove('sorted-asc','sorted-desc');
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179 });
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180 th.classList.add(asc ? 'sorted-asc' : 'sorted-desc');
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181 asc = !asc;
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182 });
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183 });
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184 });
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185 });
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186 </script>
0
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187 </body>
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188 </html>
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189 """
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190
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191
8
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192 def build_tabbed_html(
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193 summary_html: str,
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194 test_html: str,
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195 feature_html: str,
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196 explainer_html: Optional[str] = None,
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197 ) -> str:
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198 """
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199 Render the tabbed sections and an always-visible Help button.
0
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200 """
8
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diff changeset
201 # CSS
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202 css = get_html_template().split("<body>")[1].rsplit("</style>", 1)[0] + "</style>"
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203
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204 # Tabs header
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205 tabs = [
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206 '<div class="tabs">',
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207 '<div class="tab active" onclick="showTab(\'summary\')">Validation Summary & Config</div>',
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208 '<div class="tab" onclick="showTab(\'test\')">Test Summary</div>',
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209 '<div class="tab" onclick="showTab(\'feature\')">Feature Importance</div>',
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210 ]
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211 if explainer_html:
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212 tabs.append(
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213 '<div class="tab" onclick="showTab(\'explainer\')">Explainer Plots</div>'
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214 )
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215 tabs.append('<button id="openMetricsHelp" class="help-btn">Help</button>')
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216 tabs.append("</div>")
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217 tabs_section = "\n".join(tabs)
0
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218
8
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219 # Content
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220 contents = [
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221 f'<div id="summary" class="tab-content active">{summary_html}</div>',
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222 f'<div id="test" class="tab-content">{test_html}</div>',
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223 f'<div id="feature" class="tab-content">{feature_html}</div>',
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224 ]
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225 if explainer_html:
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226 contents.append(
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227 f'<div id="explainer" class="tab-content">{explainer_html}</div>'
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228 )
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229 content_section = "\n".join(contents)
0
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230
8
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231 # JS
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232 js = """
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233 <script>
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234 function showTab(id) {
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235 document.querySelectorAll('.tab-content').forEach(el=>el.classList.remove('active'));
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236 document.querySelectorAll('.tab').forEach(el=>el.classList.remove('active'));
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237 document.getElementById(id).classList.add('active');
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238 document.querySelector(`.tab[onclick*="${id}"]`).classList.add('active');
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239 }
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240 </script>
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241 """
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242
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243 return css + "\n" + tabs_section + "\n" + content_section + "\n" + js
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244
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245
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246 def customize_figure_layout(fig, margin_dict=None):
0
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247 if margin_dict is None:
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248 margin_dict = {"l": 40, "r": 40, "t": 40, "b": 40}
0
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249 fig.update_layout(margin=margin_dict)
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250 return fig
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251
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252
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253 def add_plot_to_html(fig, include_plotlyjs=True) -> str:
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254 custom_margin = {"l": 40, "r": 40, "t": 60, "b": 60}
0
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255 fig = customize_figure_layout(fig, margin_dict=custom_margin)
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256 return fig.to_html(
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257 full_html=False,
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258 default_height=350,
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259 include_plotlyjs="cdn" if include_plotlyjs else False,
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260 )
0
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261
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262
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263 def add_hr_to_html() -> str:
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264 return "<hr>"
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265
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266
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267 def encode_image_to_base64(image_path: str) -> str:
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268 with open(image_path, "rb") as img_file:
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269 return base64.b64encode(img_file.read()).decode("utf-8")
2
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270
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271
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272 def predict_proba(self, X):
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273 pred = self.predict(X)
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274 return np.vstack((1 - pred, pred)).T