gpbench 1.0.0__py3-none-any.whl

gpbench-1.0.0.dist-info/RECORD

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gpbench-1.0.0.dist-info/WHEEL

@@ -0,0 +1,5 @@
+Wheel-Version: 1.0
+Generator: setuptools (80.10.2)
+Root-Is-Purelib: true
+Tag: py3-none-any
+

gpbench-1.0.0.dist-info/entry_points.txt

@@ -0,0 +1,2 @@
+[console_scripts]
+gpbench-agent = GPBench.gp_agent_tool.main:main

gpbench-1.0.0.dist-info/top_level.txt

@@ -0,0 +1,3 @@
+gp_agent_tool
+gpbench
+tests

tests/test_import.py

@@ -0,0 +1,80 @@
+import importlib
+import pytest
+
+
+def _try_import(name: str, required: bool = True, reason: str = ""):
+    """
+    required=True: 导入失败 -> 直接失败（这类是必须依赖）
+    required=False: 导入失败 -> skip（这类是可选/平台相关依赖）
+    """
+    try:
+        return importlib.import_module(name)
+    except Exception as e:
+        msg = f"import {name} failed: {type(e).__name__}: {e}"
+        if required:
+            raise AssertionError(msg) from e
+        pytest.skip(reason or msg)
+
+# ============================================================
+# 1) 必须：本地包/目录必须能 import（安装/结构正确性）
+# ============================================================
+
+@pytest.mark.parametrize("pkg", [
+    "gpbench",
+    "method_reg",
+    "method_class",
+])
+def test_import_local_packages(pkg):
+    """
+    这些要能 import 的前提：
+    - 对应目录下存在 __init__.py
+    - 已执行 pip install -e .[dev]
+    """
+    _try_import(pkg, required=True)
+
+
+# ============================================================
+# 2) 必须：核心数值/科学计算栈（绝大多数方法都会用）
+# ============================================================
+
+@pytest.mark.parametrize("pkg", [
+    "numpy",
+    "pandas",
+    "scipy",
+    "sklearn",     # scikit-learn 的 import 名是 sklearn
+])
+def test_import_core_deps(pkg):
+    _try_import(pkg, required=True)
+
+
+# ============================================================
+# 3) 建议：训练相关（你项目里多方法可能会用，但个别机器可能不全）
+#    - torch / xgboost / lightgbm：通常很关键，建议 required=True
+# ============================================================
+
+@pytest.mark.parametrize("pkg", [
+    "torch",
+    "xgboost",
+    "lightgbm",
+])
+def test_import_ml_deps(pkg):
+    _try_import(pkg, required=True)
+
+
+# ============================================================
+# 4) 可选：平台/系统/外部组件相关（容易因为机器环境不同而失败）
+#    这些失败就 skip，不要直接让 A 阶段挂掉
+# ============================================================
+
+@pytest.mark.parametrize("pkg, reason", [
+    ("rpy2", "R 相关：需要系统有 R + 对应库，某些环境可能缺"),
+    ("tensorflow", "TF 相关：不同机器/驱动/GLIBC 可能不兼容，允许跳过"),
+    ("keras", "与 tensorflow 相关联，允许跳过"),
+    ("transformers", "大模型依赖链很长，某些机器可能不全，允许跳过"),
+    ("tokenizers", "transformers 相关，允许跳过"),
+    ("tiktoken", "LLM 相关，允许跳过"),
+    ("openai", "仅当需要调用 OpenAI API 时才必须，允许跳过"),
+    ("dashscope", "仅当需要调用 DashScope 时才必须，允许跳过"),
+])
+def test_import_optional_deps(pkg, reason):
+    _try_import(pkg, required=False, reason=reason)

tests/test_method.py

@@ -0,0 +1,232 @@
+import os
+import re
+import signal
+import subprocess
+import sys
+import time
+from pathlib import Path
+from tqdm import tqdm
+
+MAX_SECONDS = 180          # 每个脚本最多 3 分钟
+
+
+def run_script(workdir: Path, script_name: str):
+    """
+    冒烟短跑测试（适配缓冲输出问题）：
+    - cd 到 workdir
+    - python -u 强制无缓冲输出
+    - 满足任一条件就终止：
+        1) 输出包含 "Fold 5"
+        2) stdout+stderr 总输出行数 >= 10
+        3) 运行超过 RUNNING_OK_SECONDS 且未崩溃（代表脚本确实跑起来了）
+    - 不写入文件：测试端不创建文件；并通过环境变量提示脚本不要写文件（若脚本支持则生效）
+    """
+    script_path = workdir / script_name
+    assert script_path.exists(), f"脚本不存在: {script_path}"
+
+    env = os.environ.copy()
+    # 尽量阻止脚本写文件（脚本不支持也不影响）
+    env["SMOKE_TEST"] = "1"
+    env["NO_SAVE"] = "1"
+    env["NO_OUTPUT"] = "1"
+    env["SAVE"] = "0"
+    env["WRITE_FILES"] = "0"
+    env["EPOCHS"] = "1"
+    env["MAX_EPOCH"] = "1"
+
+    # ✅ 关键：-u 强制 unbuffered
+    cmd = [sys.executable, "-u", script_name]
+
+    p = subprocess.Popen(
+        cmd,
+        cwd=workdir,
+        stdout=subprocess.PIPE,
+        stderr=subprocess.PIPE,
+        text=True,
+        env=env,
+    )
+
+    stdout_lines = []
+    stderr_lines = []
+    start = time.time()
+
+    # ✅ 判定：匹配 Fold 1 或者运行到 MAX_SECONDS（3 分钟）且输出行数 >= 3
+    fold1_hit = False
+    total_lines = 0
+    # 匹配 "Fold 1"、"fold 1"、"===== Fold 1 =====" 等
+    FOLD1_PATTERN = re.compile(r"\bfold\s*1\b", re.IGNORECASE)
+    try:
+        while True:
+            elapsed = time.time() - start
+
+            # 进程结束
+            if p.poll() is not None:
+                break
+
+            # 超时保护
+            if elapsed > MAX_SECONDS:
+                p.send_signal(signal.SIGINT)
+                break
+
+            # 读 stdout 一行
+            if p.stdout:
+                line = p.stdout.readline()
+                if line:
+                    s = line.strip()
+                    stdout_lines.append(s)
+                    total_lines += 1
+                    if FOLD1_PATTERN.search(s):
+                        fold1_hit = True
+
+            # 读 stderr 一行
+            if p.stderr:
+                err = p.stderr.readline()
+                if err:
+                    s = err.strip()
+                    stderr_lines.append(s)
+                    total_lines += 1
+                    if FOLD1_PATTERN.search(s):
+                        fold1_hit = True
+
+            # 早停条件：匹配到 Fold 1（立即停止）
+            if fold1_hit:
+                p.send_signal(signal.SIGINT)
+                break
+
+            time.sleep(0.05)
+
+        # 等待退出（不强求一定优雅退出）
+        try:
+            p.wait(timeout=5)
+        except subprocess.TimeoutExpired:
+            p.kill()
+
+    finally:
+        if p.poll() is None:
+            p.kill()
+
+    elapsed = time.time() - start
+
+    debug_msg = (
+        f"\n运行脚本: {script_path}\n"
+        f"CMD: {' '.join(cmd)}\n"
+        f"CWD: {workdir}\n"
+        f"ReturnCode: {p.returncode}\n"
+        f"TOTAL lines: {total_lines}\n"
+        f"FOLD1 hit: {fold1_hit}\n"
+        f"ELAPSED: {elapsed:.1f}s\n"
+        f"--- STDOUT tail ---\n" + "\n".join(stdout_lines[-30:]) + "\n"
+        f"--- STDERR tail ---\n" + "\n".join(stderr_lines[-80:]) + "\n"
+    )
+
+    # ✅ 通过条件：匹配到 Fold 1，或运行到 MAX_SECONDS（3 分钟）且输出行数 >= 3
+    passed = fold1_hit or (elapsed >= MAX_SECONDS and total_lines >= 3)
+
+    assert passed, f"❌ 冒烟失败（未匹配 Fold 1，或运行 {MAX_SECONDS}s 后输出行数 < 3）\n{debug_msg}"
+
+
+
+# ============================================================
+# ✅ method_reg 测试用例列表
+# ============================================================
+
+METHOD_REG_CASES = [
+    ("BayesA", "BayesA.py"),
+    ("BayesB", "BayesB.py"),
+    ("BayesC", "BayesC.py"),
+    ("CropARNet", "CropARNet.py"),
+    ("Cropformer", "Cropformer.py"),
+    ("DeepCCR", "DeepCCR.py"),
+    ("DeepGS", "DeepGS.py"),
+    ("DL_GWAS", "DL_GWAS.py"),
+    ("DNNGP", "DNNGP.py"),
+    ("EIR", "EIR.py"),
+    ("ElasticNet", "ElasticNet.py"),
+    ("G2PDeep", "G2Pdeep.py"),
+    ("GBLUP", "GBLUP_R.py"),
+    ("GEFormer", "GEFormer.py"),
+    ("LightGBM", "LightGBM.py"),
+    ("MVP", "MVP.py"),
+    ("RF", "RF_GPU.py"),
+    ("rrBLUP", "rrBLUP.py"),
+    ("SoyDNGP", "SoyDNGP.py"),
+    ("SVR", "SVR_GPU.py"),
+    ("XGBoost", "XGboost_GPU.py"),
+]
+
+
+def test_method_reg():
+    """
+    冒烟测试：
+    对 method_reg 下所有方法逐个短跑验证
+    """
+    # base_dir = Path("method_reg")
+    # total = len(METHOD_REG_CASES)
+
+    # for i, (folder, script) in enumerate(METHOD_REG_CASES, 1):
+    #     print(f"\n[{i}/{total}] Testing {folder}/{script} ...")
+
+    #     workdir = base_dir / folder
+    #     run_script(workdir, script)
+
+
+    base_dir = Path("method_reg")
+    for folder, script in tqdm(
+        METHOD_REG_CASES,
+        desc="🚀 Testing method_reg",
+        unit="method",
+        file=sys.stderr,     # ✅ 强制输出到 stderr（tqdm 默认也是 stderr，但这里显式指定更稳）
+        dynamic_ncols=True,  # ✅ 自动适配终端宽度
+        leave=False,          # ✅ 结束后保留进度条
+        mininterval=0.2,     # ✅ 刷新频率
+    ):
+        workdir = base_dir / folder
+        run_script(workdir, script)
+
+
+
+# ============================================================
+# ✅ method_class 测试用例列表
+# ============================================================
+
+METHOD_CLASS_CASES = [
+    ("BayesA", "BayesA_class.py"),
+    ("BayesB", "BayesB_class.py"),
+    ("BayesC", "BayesC_class.py"),
+    ("CropARNet", "CropARNet_class.py"),
+    ("Cropformer", "Cropformer_class.py"),
+    ("DeepCCR", "DeepCCR_class.py"),
+    ("DeepGS", "DeepGS_class.py"),
+    ("DL_GWAS", "DL_GWAS_class.py"),
+    ("DNNGP", "DNNGP_class.py"),
+    ("EIR", "EIR_class.py"),
+    ("ElasticNet", "ElasticNet_class.py"),
+    ("G2PDeep", "G2Pdeep_class.py"),
+    ("GBLUP", "GBLUP_class.py"),
+    ("GEFormer", "GEFormer_class.py"),
+    ("LightGBM", "LightGBM_class.py"),
+    ("RF", "RF_GPU_class.py"),
+    ("rrBLUP", "rrBLUP_class.py"),
+    ("SoyDNGP", "SoyDNGP_class.py"),
+    ("SVR", "SVC_GPU.py"),
+    ("XGBoost", "XGboost_GPU_class.py"),
+]
+
+
+def test_method_class():
+    """
+    冒烟测试：
+    对 method_class 下所有方法逐个短跑验证
+    """
+    base_dir = Path("method_class")
+    for folder, script in tqdm(
+        METHOD_CLASS_CASES,
+        desc="🚀 Testing method_class",
+        unit="method",
+        file=sys.stderr,     # ✅ 强制输出到 stderr（tqdm 默认也是 stderr，但这里显式指定更稳）
+        dynamic_ncols=True,  # ✅ 自动适配终端宽度
+        leave=False,          # ✅ 结束后保留进度条
+        mininterval=0.2,     # ✅ 刷新频率
+    ):
+        workdir = base_dir / folder
+        run_script(workdir, script)