LICENSE

@@ -1,208 +0,0 @@
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-   Licensed under the Apache License, Version 2.0 (the "License");
-   you may not use this file except in compliance with the License.
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-- Cellpose (https://github.com/mouseland/cellpose)
-  Licensed under the BSD 3-Clause License.
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-  See LICENSES/BSD-3-Clause-cellpose.txt for details.

LICENSES/BSD-3-Clause-cellpose.txt

@@ -1,11 +0,0 @@
-# From the Cellpose project (https://github.com/mouseland/cellpose)
-# Original license text follows:
-
-Copyright © 2020 Howard Hughes Medical Institute
-
-Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:
-
-Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer.
-Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
-Neither the name of HHMI nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission.
-THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS “AS IS” AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

README.md

@@ -6,13 +6,8 @@
   <img alt="Static Badge" src="https://img.shields.io/badge/Redis-6.4.0-red">
   <img alt="Static Badge" src="https://img.shields.io/badge/JSDelivr-in_use-brown">
   <img alt="Static Badge" src="https://img.shields.io/badge/Flask-3.1.2-8ecae6">
-  <br><br>
-  <img width="1920" height="1080" alt="image" src="https://github.com/user-attachments/assets/da5b891e-b4ac-484a-885c-0856f18e04fc" style="height: 70%; width: 70%"/>
 </p>
 
-
-
-
 <br>
 
 🌈 实现功能：
@@ -21,19 +16,7 @@
 - ⛵️ 训练、分割结果随时下载
 - 📚 权重可直接作为后续分割模型
 - 🛠️ 一键安装部署脚本
-- 🎨 前端样式美化
+- 🚧 [TODO] 前端样式美化
-
-<br>
-
-## 🚀一键安装
-
-在<b>[最新Release页面](https://github.com/ClovertaTheTrilobita/cellpose-web/releases/latest)</b>中下载最新的 <b>install.sh</b> 到你的Linux/macOS机器上。
-
-将它放到你希望项目存在的位置，并执行它，安装脚本会将项目自动拉取到同一目录下。
-
-**NOTE:** 安装脚本设计上支持Debian系、Arch系、RHEL系Linux,但目前仅测试过Arch Linux。其他发行版暂未经过测试，若出现意外错误，推荐手动安装。
-
-Windows暂时不支持通过脚本一键安装。
 
 <br>
 
@@ -161,10 +144,3 @@ python main.py
 请将Nginx指向<b>[`frontend/index.html`](frontend/index.html)</b>。
 
 如果你在本地部署，你可以在启动后端后直接打开<b>[`index.html`](frontend/index.html)</b>，开始使用。
-
-## ⚖️License
-
-This project is licensed under the [Apache-2.0 license](LICENSE).
-
-It also includes code and ideas from the [Cellpose](https://github.com/mouseland/cellpose) project,
-which is licensed under the [BSD 3-Clause License](LICENSES/BSD-3-Clause-cellpose.txt).

backend/config.yaml

@@ -1,5 +1,5 @@
 backend:
-  ip: 192.168.193.141
+  ip: 10.10.25.240
   port: 5000
 
 model:

backend/cp_run.py

@@ -62,20 +62,6 @@ class Cprun:
                   diameter: float | None = None,
                   flow_threshold: float = 0.4,
                   cellprob_threshold: float = 0.0, ):
-        """
-        运行 cellpose 分割
-
-        Args:
-            images: [list] 图片存储路径
-            time: [str] 开始运行的时间，相当于本次运行的ID，用于存储运行结果
-            model: [str] 图像分割所使用的模型
-            diameter: [float]  diameters are used to rescale the image to 30 pix cell diameter.
-            flow_threshold: [float] flow error threshold (all cells with errors below threshold are kept) (not used for 3D). Defaults to 0.4.
-            cellprob_threshold: [float] all pixels with value above threshold kept for masks, decrease to find more and larger masks. Defaults to 0.0.
-
-        Returns:
-
-        """
 
         if time is None:
             return [False, "No time received"]
@@ -85,10 +71,9 @@ class Cprun:
 
         message = [f"Using {model} model"]
 
-        # 设定模型参数
         model = models.CellposeModel(gpu=True, model_type=model)
         files = images
-        imgs = [imread(f) for f in files] # 获取目录中的每一个文件
+        imgs = [imread(f) for f in files]
         masks, flows, styles = model.eval(
             imgs,
             flow_threshold=flow_threshold,
@@ -105,7 +90,7 @@ class Cprun:
             out = base + "_output"
             save_masks(imgs, mask, flow, out, tif=True)
 
-            # 用 plot 生成彩色叠加图
+            # 用 plot 生成彩色叠加图（不依赖 skimage）
             rgb = plot.image_to_rgb(img, channels=[0, 0])  # 原图转 RGB
             over = plot.mask_overlay(rgb, masks=mask, colors=None)  # 叠加彩色实例
             Image.fromarray(over).save(base + "_overlay.png")

backend/cp_train.py

@@ -19,19 +19,6 @@ os.environ["CELLPOSE_LOCAL_MODELS_PATH"] = MODELS_DIR
 r = redis.Redis(host="127.0.0.1", port=6379, db=0)
 
 def set_status(task_id, status, train_losses, test_losses, **extra):
-    """
-    修改redis数据库中某一任务的运行状态
-
-    Args:
-        task_id: 这一任务的时间戳
-        status: 任务状态
-        train_losses: 此次任务的训练loss
-        test_losses: 此次任务的测试loss
-        **extra:
-
-    Returns:
-
-    """
     payload = {"status": status,
                "updated_at": datetime.datetime.utcnow().isoformat(),
                "train_losses": train_losses.tolist() if hasattr(train_losses, "tolist") else train_losses,
@@ -68,32 +55,6 @@ class Cptrain:
                           scale_range=None,
                           channel_axis: int = None,
                           ):
-        """
-        开始训练
-
-        Args:
-            time: 此次任务的时间戳（即任务ID）
-            model_name: 训练结果命名
-            image_filter:
-            mask_filter:
-            base_model:
-            train_probs:
-            test_probs:
-            batch_size:
-            learning_rate:
-            n_epochs:
-            weight_decay:
-            normalize:
-            compute_flows:
-            min_train_masks:
-            nimg_per_epoch:
-            rescale:
-            scale_range:
-            channel_axis:
-
-        Returns:
-
-        """
 
         train_dir = Path(TRAIN_DIR) / time
         test_dir = Path(TEST_DIR) / time

backend/flaskApp.py

@@ -93,10 +93,15 @@ def run_upload():
             return default
 
     flow_threshold = _to_float(request.args.get("flow_threshold") or request.form.get("flow_threshold"), 0.4)
-    cellprob_threshold = _to_float(request.args.get("cellprob_threshold") or request.form.get("cellprob_threshold"),0.0)
+    cellprob_threshold = _to_float(request.args.get("cellprob_threshold") or request.form.get("cellprob_threshold"),
+                                   0.0)
     diameter_raw = request.args.get("diameter") or request.form.get("diameter")
     diameter = _to_float(diameter_raw, None) if diameter_raw not in (None, "") else None
 
+    print("cpt:" + str(cellprob_threshold))
+    print("flow:" + str(flow_threshold))
+    print("diameter:" + str(diameter))
+
     # 将文件保存在本地目录中
     ts = datetime.datetime.now().strftime("%Y-%m-%d-%H-%M-%S") + f"-{int(time.time()*1000)%1000:03d}"
     os.makedirs(Path(UPLOAD_DIR) / ts, exist_ok=True)
@@ -135,39 +140,19 @@ def run_upload():
 
 @app.post("/train_upload")
 def train_upload():
-    """
-    从前端获取训练数据和测试数据，并开始训练
-
-    Returns:
-
-    """
 
     def _to_float(x, default):
-        """
-        将变量转为float类型
-        Args:
-            x: 变量
-            default: 默认值
-        """
-
         try:
             return float(x)
         except (TypeError, ValueError):
             return default
 
     def _to_int(x, default):
-        """
-        将变量转为int类型
-        Args:
-            x: 变量
-            default: 默认值
-        """
         try:
             return int(x)
         except (TypeError, ValueError):
             return default
 
-    # 获取从前端传来的参数
     ts = datetime.datetime.now().strftime("%Y-%m-%d-%H-%M-%S") + f"-{int(time.time()*1000)%1000:03d}"
     model_name = request.args.get("model_name") or f"custom_model-{ts}"
     image_filter = request.args.get("image_filter") or "_img"
@@ -197,7 +182,6 @@ def train_upload():
     scale_range = _to_float(request.args.get("scale_range"), None)
     channel_axis = _to_int(request.args.get("channel_axis"), None)
 
-    # 创建工作目录
     train_files = request.files.getlist("train_files")
     test_files = request.files.getlist("test_files")
     os.makedirs(Path(TRAIN_DIR) /  ts, exist_ok=True)
@@ -219,30 +203,34 @@ def train_upload():
         saved.append(os.path.join(TEST_DIR, ts, name))
 
     def job():
-        """
-        子线程方法
-        """
         return asyncio.run(Cptrain.start_train(
-            time=ts, model_name=model_name, image_filter=image_filter, mask_filter=mask_filter, base_model=base_model,
+            time=ts,
-            batch_size=batch_size, learning_rate=learning_rate, n_epochs=n_epochs, weight_decay=weight_decay,
+            model_name=model_name,
-            normalize=normalize, compute_flows=compute_flows, min_train_masks=min_train_masks, nimg_per_epoch=nimg_per_epoch,
+            image_filter=image_filter,
-            rescale=rescale, scale_range=scale_range, channel_axis=channel_axis,
+            mask_filter=mask_filter,
+            base_model=base_model,
+            batch_size=batch_size,
+            learning_rate=learning_rate,
+            n_epochs=n_epochs,
+            weight_decay=weight_decay,
+            normalize=normalize,
+            compute_flows=compute_flows,
+            min_train_masks=min_train_masks,
+            nimg_per_epoch=nimg_per_epoch,
+            rescale=rescale,
+            scale_range=scale_range,
+            channel_axis=channel_axis,
         ))
 
-    # 创建一个子线程，防止阻塞主线程
     fut = executor.submit(job)
 
     def done_cb(f):
-        """
-        获取训练结果，并存入redis数据库
-        """
         try:
             train_losses, test_losses = f.result()
             set_train_status(ts, "success", train_losses, test_losses)
         except Exception as e:
             set_status(ts, "failed", error=str(e))
 
-    # 添加回调，在子线程执行完后更新redis中任务状态
     fut.add_done_callback(done_cb)
 
     return jsonify({"ok": True, "count": len(saved), "id": ts})
@@ -256,20 +244,12 @@ def status():
     """
     task_id = request.args.get('id')
     st = get_status(task_id)
-    print(st)
     if not st:
         return jsonify({"ok": True, "exists": False, "status": "not_found"}), 200
     return jsonify({"ok": True, "exists": True, **st}), 200
 
 @app.get("/preview")
 def preview():
-    """
-    获取本次分割结果的预览
-
-    Returns:
-
-    """
-
     task_id = request.args.get('id')
     task_dir = Path(OUTPUT_DIR) / task_id
     if not task_dir.exists():
@@ -294,24 +274,11 @@ def preview():
 
 @app.get("/models")
 def list_models():
-    """
+    models_list = os.listdir(MODELS_DIR)
-    获取现有模型列表
-
-    Returns:
-
-    """
-
-    models_list = os.listdir(MODELS_DIR) # 查询模型列表中有哪些文件
     return jsonify({"ok": True, "models": models_list})
 
 @app.get("/result")
 def list_results():
-    """
-    获取运行结果
-
-    Returns:
-
-    """
     task_id = request.args.get('id')
     st = get_status(task_id)
     if not st:

backend/main.py

@@ -4,7 +4,7 @@ from multiprocessing import Process
 
 
 if __name__ == "__main__":
-    # 启动测试服务器
+    # Cprun.run_test()
     p = Process(target=run_dev)
     p.start()
     print(f"Flask running in PID {p.pid}")

frontend/api.js

@@ -1,7 +1,7 @@
 const config = {
   server: {
     protocol: 'http',
-    host: '192.168.193.141',
+    host: '10.10.25.240',
     port: 5000
   }
 };

frontend/train_result.html

@@ -100,7 +100,7 @@
                 <canvas id="lossChart"></canvas>
             </div>
 
-            <!-- 底部小提示 -->
+            <!-- 可选：底部小提示（不影响现有 JS） -->
             <div class="mt-3 text-secondary small">
                 提示：如果你使用 Chart.js，建议设置 <code>responsive: true</code> 与 <code>maintainAspectRatio: false</code>，
                 本页样式已自动保证画布自适应容器尺寸。
@@ -138,17 +138,12 @@
                 const data = res.data;
 
                 if (!exists) {
-                    msg.textContent = `任务 "${ID}" 不存在`;
+                    msg.textContent = `id "${ID}" 不存在`;
                     msg.hidden = false;
                     cava.hidden = true;
                 }
                 else if (status == "running") {
-                    msg.textContent = `任务 "${ID}" 仍在运行中，请耐心等待片刻后刷新。`;
+                    msg.textContent = `id "${ID}" 仍在运行中，请耐心等待片刻后刷新。`;
-                    msg.hidden = false;
-                    cava.hidden = true;
-                }
-                else if (status == "failed") {
-                    msg.textContent = `任务 "${ID}" 运行失败，由于："Error: ${data.error}"，请检查上传数据集是否存在问题`;
                     msg.hidden = false;
                     cava.hidden = true;
                 }

install.sh

@@ -129,61 +129,22 @@ install_arch() {
 install_rhel() {
   local package=$1
   local SUDO=$(need_sudo)
-
-  set -e
-  local PM
-  if command -v dnf >/dev/null 2>&1; then PM=dnf; else PM=yum; fi
-  # 识别 RHEL/CentOS 主版本号：7/8/9
-  local ELVER; ELVER="$(rpm -E %rhel 2>/dev/null || echo 0)"
-  
   # 优先 dnf；旧版用 yum。RHEL/CentOS/Fedora 的 python3 自带 venv
-  if [[ "$package" = "python" ]]; then
+  if command -v dnf >/dev/null 2>&1; then
-    if command -v dnf >/dev/null 2>&1; then
+    if [[ "$package" = "python" ]]; then
       $SUDO dnf -y install python3 python3-pip
-      $SUDO dnf -y groupinstall "Development Tools" || true
+      # 开发工具组（可选）
-    else
+    elif [[ "$package" = "redis" ]]; then
+      $SUDO dnf -y install redis
+    fi
+    $SUDO dnf -y groupinstall "Development Tools" || true
+  else
+    if [[ "$package" = "python" ]]; then
       $SUDO yum -y install python3 python3-pip || true
-      $SUDO yum -y groupinstall "Development Tools" || true
+    elif [[ "$package" = "redis" ]]; then
-    fi
+      $SUDO yum install -y redis
-  elif [[ "$package" = "redis" ]]; then
-    if [ "$ELVER" -eq 7 ]; then
-      sudo $PM install -y epel-release
-      sudo $PM install -y redis
-    elif [ "$ELVER" -eq 8 ]; then
-      sudo $PM install -y epel-release
-      # 启用 PowerTools（EL8）
-      if command -v dnf >/dev/null 2>&1; then
-        sudo dnf config-manager --set-enabled powertools || true
-      else
-        sudo yum install -y dnf-plugins-core || true
-        sudo yum config-manager --set-enabled powertools || true
-      fi
-      # 启用 AppStream 模块里的 redis（常见是 6）
-      sudo dnf -y module reset redis   2>/dev/null || true
-      sudo dnf -y module enable redis:6 2>/dev/null || true
-      sudo $PM install -y redis
-  
-    else # EL9 及以上（CentOS Stream 9 / RHEL 9）
-      sudo $PM install -y epel-release
-      # 启用 CRB（EL9 的 PowerTools）
-      if command -v dnf >/dev/null 2>&1; then
-        sudo dnf config-manager --set-enabled crb || true
-      fi
-      # 先尝试 EPEL 提供的 redis（有的镜像没有）
-      if ! sudo $PM install -y redis; then
-        # 回退到 Remi 仓库（提供 redis:7）
-        sudo $PM install -y https://rpms.remirepo.net/enterprise/remi-release-9.rpm
-        sudo dnf -y module reset redis   || true
-        sudo dnf -y module enable redis:7 || true
-        sudo $PM install -y redis
-      fi
-    fi
-
-    # 安装后启动服务（不同发行服务名不同）
-    if command -v systemctl >/dev/null 2>&1; then
-      sudo systemctl enable --now redis        2>/dev/null || \
-      sudo systemctl enable --now redis-server 2>/dev/null || true
     fi
+    $SUDO yum -y groupinstall "Development Tools" || true
   fi
 }
 
@@ -249,13 +210,13 @@ install_redis() {
 
   case "$id" in
   arch | manjaro)
-    install_arch "redis"
+    install_arch
     ;;
   ubuntu | debian | linuxmint | pop | elementary | neon | kali | raspbian)
-    install_debian "redis"
+    install_debian
     ;;
   fedora | centos | rhel | rocky | almalinux | ol)
-    install_rhel "redis"
+    install_rhel
     ;;
   *)
     # 用 ID_LIKE 兜底
@@ -290,7 +251,7 @@ if [ -n "$root" ]; then
 else
   echo -e "${YELLOW}==>${RESET} Repo enviroment not found"
   if ask_yn "Do you wish to clone it from github?" y; then
-    echo -e "${GREEN}==>${RESET} Cloning from remote..."
+    echo "${GREEN}==>${RESET} Cloning from remote..."
     git clone https://github.com/ClovertaTheTrilobita/cellpose-web.git
 
     if ! cd cellpose-web; then