From 9df8cb0fc25320044ee2746096ce33bf08fbfe56 Mon Sep 17 00:00:00 2001
From: akikuno <akikuno@users.noreply.github.com>
Date: Sun, 2 Mar 2025 05:46:16 +0900
Subject: [PATCH] Add tests for genelist

---
 tests/gene_list/Asxl1.json | 84 ++++++++++++++++++++++++++++++++++++++
 tests/gene_list/Rab10.json |  0
 tests/gene_list/index.html | 78 +++++++++++++++++++++++++++++++++++
 tests/gene_list/memo.md    |  9 ++++
 4 files changed, 171 insertions(+)
 create mode 100644 tests/gene_list/Asxl1.json
 create mode 100644 tests/gene_list/Rab10.json
 create mode 100644 tests/gene_list/index.html
 create mode 100644 tests/gene_list/memo.md

diff --git a/tests/gene_list/Asxl1.json b/tests/gene_list/Asxl1.json
new file mode 100644
index 0000000..7531f49
--- /dev/null
+++ b/tests/gene_list/Asxl1.json
@@ -0,0 +1,84 @@
+[    {
+        "data": {
+            "id": "Asxl1",
+            "label": "Asxl1",
+            "node_color": 1,
+            "annotation": [
+                "abnormal cornea morphology (Hetero)",
+                "cornea opacity (Hetero)",
+                "decreased circulating glucose level (Hetero, \u2640)",
+                "decreased circulating iron level (Hetero, \u2640)",
+                "decreased hematocrit (Hetero, \u2640)",
+                "decreased hemoglobin content (Hetero)",
+                "decreased mean corpuscular hemoglobin (Hetero)",
+                "decreased mean corpuscular volume (Hetero)",
+                "decreased sacral vertebrae number (Hetero)",
+                "hyperactivity (Hetero)",
+                "impaired pupillary reflex (Hetero)",
+                "increased blood uric acid level (Hetero, \u2642)",
+                "increased bone mineral content (Hetero)",
+                "increased lumbar vertebrae number (Hetero)",
+                "preweaning lethality, complete penetrance (Homo)",
+                "vertebral fusion (Hetero)"
+            ]
+        }
+    },
+    {
+        "data": {
+            "id": "Rab10",
+            "label": "Rab10",
+            "node_color": 0,
+            "annotation": [
+                "abnormal auditory brainstem response (Hetero)",
+                "decreased mean corpuscular hemoglobin (Hetero)",
+                "decreased mean corpuscular volume (Hetero)",
+                "embryonic lethality prior to organogenesis (Homo)",
+                "increased startle reflex (Hetero, \u2640)",
+                "iris synechia (Hetero)",
+                "preweaning lethality, complete penetrance (Homo)"
+            ]
+        }
+    },
+    {
+        "data": {
+            "id": "Rev3l",
+            "label": "Rev3l",
+            "node_color": 0,
+            "annotation": [
+                "abnormal retina morphology (Hetero)",
+                "cataract (Hetero)",
+                "decreased blood urea nitrogen level (Hetero)",
+                "decreased circulating creatinine level (Hetero, \u2640)",
+                "decreased mean corpuscular volume (Hetero)",
+                "hyperactivity (Hetero)",
+                "hyperactivity (Hetero, \u2642)",
+                "increased mean corpuscular hemoglobin concentration (Hetero)",
+                "preweaning lethality, complete penetrance (Homo)"
+            ]
+        }
+    },
+    {
+        "data": {
+            "source": "Asxl1",
+            "target": "Rab10",
+            "edge_size": 0.15,
+            "annotation": [
+                "decreased mean corpuscular hemoglobin (Hetero)",
+                "decreased mean corpuscular volume (Hetero)",
+                "preweaning lethality, complete penetrance (Homo)"
+            ]
+        }
+    },
+    {
+        "data": {
+            "source": "Atp6v1b2",
+            "target": "Rab10",
+            "edge_size": 0.214,
+            "annotation": [
+                "decreased mean corpuscular hemoglobin (Hetero)",
+                "embryonic lethality prior to organogenesis (Homo)",
+                "preweaning lethality, complete penetrance (Homo)"
+            ]
+        }
+    }
+]
diff --git a/tests/gene_list/Rab10.json b/tests/gene_list/Rab10.json
new file mode 100644
index 0000000..e69de29
diff --git a/tests/gene_list/index.html b/tests/gene_list/index.html
new file mode 100644
index 0000000..59eca4a
--- /dev/null
+++ b/tests/gene_list/index.html
@@ -0,0 +1,78 @@
+<!DOCTYPE html>
+<html lang="ja">
+
+<head>
+    <meta charset="UTF-8">
+    <meta name="viewport" content="width=device-width, initial-scale=1.0">
+    <title>JSON フィルタリング</title>
+    <style>
+        body {
+            font-family: Arial, sans-serif;
+            margin: 20px;
+        }
+
+        textarea {
+            width: 100%;
+            height: 150px;
+        }
+
+        pre {
+            background-color: #f4f4f4;
+            padding: 10px;
+            border-radius: 5px;
+            white-space: pre-wrap;
+            word-wrap: break-word;
+        }
+    </style>
+</head>
+
+<body>
+
+    <h1>JSONデータのフィルタリング</h1>
+
+    <label for="geneInput">遺伝子名（カンマ区切りで入力）:</label>
+    <input type="text" id="geneInput" value="Asxl1, Rab10">
+    <button onclick="filterJson()">フィルタリング</button>
+
+    <h2>フィルタ結果</h2>
+    <pre id="output"></pre>
+
+    <script>
+        // JSONデータ
+        const jsonData = [
+            {
+                "data": { "id": "Asxl1", "label": "Asxl1", "node_color": 1 }
+            },
+            {
+                "data": { "id": "Rab10", "label": "Rab10", "node_color": 0 }
+            },
+            {
+                "data": { "id": "Rev3l", "label": "Rev3l", "node_color": 0 }
+            },
+            {
+                "data": { "source": "Asxl1", "target": "Rab10", "edge_size": 0.15 }
+            },
+            {
+                "data": { "source": "Atp6v1b2", "target": "Rab10", "edge_size": 0.214 }
+            }
+        ];
+
+        function filterJson() {
+            // 入力された遺伝子名を取得し、配列に変換
+            const geneInput = document.getElementById("geneInput").value;
+            const geneKeys = new Set(geneInput.split(",").map(gene => gene.trim()));
+
+            // JSONデータをフィルタリング
+            const filteredData = jsonData.filter(item => {
+                const data = item.data;
+                return geneKeys.has(data.id) || geneKeys.has(data.source) || geneKeys.has(data.target);
+            });
+
+            // 結果を表示
+            document.getElementById("output").textContent = JSON.stringify(filteredData, null, 2);
+        }
+    </script>
+
+</body>
+
+</html>
diff --git a/tests/gene_list/memo.md b/tests/gene_list/memo.md
new file mode 100644
index 0000000..7520ee3
--- /dev/null
+++ b/tests/gene_list/memo.md
@@ -0,0 +1,9 @@
+
+```bash
+zcat test-tsumugi/data/genesymbol/Asxl1.json.gz | grep -n "Rab10"
+zcat test-tsumugi/data/genesymbol/Asxl1.json.gz | grep -n "Asxl1"
+zcat test-tsumugi/data/genesymbol/Asxl1.json.gz | head -n 50 | tail -n 50
+zcat test-tsumugi/data/genesymbol/Asxl1.json.gz | head -n 450 | tail -n 50
+zcat test-tsumugi/data/genesymbol/Asxl1.json.gz | head -n 800 | tail -n 50
+zcat test-tsumugi/data/genesymbol/Asxl1.json.gz | head -n 950 | tail -n 50
+```