Fix directory structure
Browse files- Dockerfile +18 -0
- app.py +663 -0
- requirements.txt +16 -0
Dockerfile
ADDED
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| 1 |
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FROM python:3.12-slim
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WORKDIR /webserver
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COPY requirements.txt .
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RUN pip install --no-cache-dir -r requirements.txt
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# 5. 安全设置:创建一个普通用户运行程序(Hugging Face 推荐)
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RUN useradd -m -u 1000 user
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USER user
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ENV PATH="/home/user/.local/bin:$PATH"
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# 6. 搬运代码:把当前文件夹所有代码复制到电脑里
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COPY --chown=user . /webserver
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# 7. 启动:按下“开机键”
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CMD ["uvicorn", "webserver:app", "--host", "0.0.0.0", "--port", "7860"]
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app.py
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@@ -0,0 +1,663 @@
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|
| 1 |
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import os
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import multiprocessing
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import signal
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import shutil
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import uuid
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import re
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from datetime import datetime
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from pathlib import Path
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| 9 |
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from threading import Thread
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from typing import Optional
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import matplotlib
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matplotlib.use("Agg")
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| 14 |
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import matplotlib.pyplot as plt
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| 15 |
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import numpy as np
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| 16 |
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import json
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| 17 |
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import torch
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| 18 |
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from fastapi import FastAPI, File, Form, HTTPException, Request, UploadFile
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| 19 |
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from fastapi.responses import FileResponse, JSONResponse, RedirectResponse
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| 20 |
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from fastapi.templating import Jinja2Templates
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| 21 |
+
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| 22 |
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from webserver.train_service import TrainConfig, predict_with_checkpoint, run_finetune_job
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| 23 |
+
from webserver.label_utils import load_label_mapping, apply_label_mapping
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| 24 |
+
|
| 25 |
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BASE_DIR = os.path.dirname(__file__)
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| 26 |
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UPLOAD_DIR = os.path.join(BASE_DIR, "uploads")
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| 27 |
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RUNS_DIR = os.path.join(BASE_DIR, "runs")
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| 28 |
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PREDICTIONS_DIR = os.path.join(BASE_DIR, "predictions")
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| 29 |
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TEMPLATE_DIR = os.path.join(BASE_DIR, "webserver/templates")
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| 30 |
+
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| 31 |
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os.makedirs(UPLOAD_DIR, exist_ok=True)
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| 32 |
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os.makedirs(RUNS_DIR, exist_ok=True)
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| 33 |
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os.makedirs(PREDICTIONS_DIR, exist_ok=True)
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| 34 |
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| 35 |
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app = FastAPI(title="Raman Fine-Tune Webserver")
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| 36 |
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templates = Jinja2Templates(directory=TEMPLATE_DIR)
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| 37 |
+
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| 38 |
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if multiprocessing.current_process().name == "MainProcess":
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| 39 |
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JOB_MANAGER = multiprocessing.Manager()
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| 40 |
+
JOBS = JOB_MANAGER.dict()
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| 41 |
+
else:
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| 42 |
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JOB_MANAGER = None
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| 43 |
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JOBS = {}
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| 44 |
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JOB_PROCESSES = {}
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| 45 |
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JOB_CONTEXT = multiprocessing.get_context("spawn")
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| 46 |
+
|
| 47 |
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|
| 48 |
+
def _save_upload(file_obj: UploadFile, dst_path: str):
|
| 49 |
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with open(dst_path, "wb") as out:
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| 50 |
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shutil.copyfileobj(file_obj.file, out)
|
| 51 |
+
|
| 52 |
+
|
| 53 |
+
def _load_report_text(report_path: str):
|
| 54 |
+
if not os.path.isfile(report_path):
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| 55 |
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return None
|
| 56 |
+
with open(report_path, "r", encoding="utf-8") as f:
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| 57 |
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return f.read()
|
| 58 |
+
|
| 59 |
+
|
| 60 |
+
def _build_artifact_entries(base_dir: str, artifact_map: dict, route_prefix: str):
|
| 61 |
+
entries = []
|
| 62 |
+
for key, filename in artifact_map.items():
|
| 63 |
+
file_path = os.path.join(base_dir, filename)
|
| 64 |
+
if not os.path.isfile(file_path):
|
| 65 |
+
continue
|
| 66 |
+
entries.append(
|
| 67 |
+
{
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| 68 |
+
"key": key,
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| 69 |
+
"filename": filename,
|
| 70 |
+
"url": f"/{route_prefix}/{os.path.basename(base_dir)}/{filename}",
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| 71 |
+
"is_image": filename.lower().endswith((".png", ".jpg", ".jpeg", ".webp", ".gif")),
|
| 72 |
+
"is_text": filename.lower().endswith((".txt", ".json", ".csv")),
|
| 73 |
+
}
|
| 74 |
+
)
|
| 75 |
+
return entries
|
| 76 |
+
|
| 77 |
+
|
| 78 |
+
def _safe_result_file(root_dir: str, item_id: str, filename: str):
|
| 79 |
+
safe_name = os.path.basename(filename)
|
| 80 |
+
folder = os.path.join(root_dir, item_id)
|
| 81 |
+
file_path = os.path.join(folder, safe_name)
|
| 82 |
+
if not os.path.isfile(file_path):
|
| 83 |
+
raise HTTPException(status_code=404, detail="File not found")
|
| 84 |
+
return file_path
|
| 85 |
+
|
| 86 |
+
|
| 87 |
+
def _safe_uploaded_name(filename: str) -> str:
|
| 88 |
+
safe_name = os.path.basename(filename or "")
|
| 89 |
+
if not safe_name:
|
| 90 |
+
raise HTTPException(status_code=400, detail="Uploaded file is missing a filename")
|
| 91 |
+
return safe_name
|
| 92 |
+
|
| 93 |
+
|
| 94 |
+
def _is_optional_file(upload: Optional[UploadFile]) -> bool:
|
| 95 |
+
return upload is None or not getattr(upload, "filename", "") or not str(upload.filename).strip()
|
| 96 |
+
|
| 97 |
+
|
| 98 |
+
def _is_blank_upload(upload: Optional[UploadFile]) -> bool:
|
| 99 |
+
return upload is None or not getattr(upload, "filename", "") or not str(upload.filename).strip()
|
| 100 |
+
|
| 101 |
+
|
| 102 |
+
def _render_predict_results_fragment(
|
| 103 |
+
prediction_id: str,
|
| 104 |
+
summary: dict,
|
| 105 |
+
rows: list[dict],
|
| 106 |
+
top5_rows: list[dict],
|
| 107 |
+
download_csv: str,
|
| 108 |
+
preview_image: str,
|
| 109 |
+
):
|
| 110 |
+
return templates.env.get_template("predict_result_fragment.html").render(
|
| 111 |
+
prediction_id=prediction_id,
|
| 112 |
+
summary=summary,
|
| 113 |
+
rows=rows,
|
| 114 |
+
top5_rows=top5_rows,
|
| 115 |
+
download_csv=download_csv,
|
| 116 |
+
preview_image=preview_image,
|
| 117 |
+
)
|
| 118 |
+
|
| 119 |
+
|
| 120 |
+
def _parse_numeric_text_file(file_path: str) -> np.ndarray:
|
| 121 |
+
rows = []
|
| 122 |
+
with open(file_path, "r", encoding="utf-8", errors="ignore") as f:
|
| 123 |
+
for raw_line in f:
|
| 124 |
+
line = raw_line.strip()
|
| 125 |
+
if not line or line.startswith("#"):
|
| 126 |
+
continue
|
| 127 |
+
tokens = [token for token in re.split(r"[\s,]+", line) if token]
|
| 128 |
+
values = []
|
| 129 |
+
for token in tokens:
|
| 130 |
+
try:
|
| 131 |
+
values.append(float(token))
|
| 132 |
+
except ValueError:
|
| 133 |
+
continue
|
| 134 |
+
if values:
|
| 135 |
+
rows.append(values)
|
| 136 |
+
|
| 137 |
+
if not rows:
|
| 138 |
+
raise ValueError("No numeric data found in text file")
|
| 139 |
+
|
| 140 |
+
max_cols = max(len(row) for row in rows)
|
| 141 |
+
if max_cols == 1:
|
| 142 |
+
return np.asarray([row[0] for row in rows], dtype=np.float32)
|
| 143 |
+
|
| 144 |
+
return np.asarray([[row[0], row[1]] for row in rows if len(row) >= 2], dtype=np.float32)
|
| 145 |
+
|
| 146 |
+
|
| 147 |
+
def _load_prediction_spectrum(file_path: str) -> tuple[np.ndarray, Optional[np.ndarray], str]:
|
| 148 |
+
extension = os.path.splitext(file_path)[1].lower()
|
| 149 |
+
if extension in {".txt", ".csv"}:
|
| 150 |
+
data = _parse_numeric_text_file(file_path)
|
| 151 |
+
if data.ndim == 1:
|
| 152 |
+
spectra = data.astype(np.float32).reshape(1, -1)
|
| 153 |
+
return spectra, None, "text_intensity_only"
|
| 154 |
+
|
| 155 |
+
if data.ndim == 2 and data.shape[1] >= 2:
|
| 156 |
+
wavenumbers = data[:, 0].astype(np.float32)
|
| 157 |
+
spectra = data[:, 1].astype(np.float32).reshape(1, -1)
|
| 158 |
+
return spectra, wavenumbers, "text_wavenumber_intensity"
|
| 159 |
+
|
| 160 |
+
raise ValueError("Text spectrum must contain either one intensity column or two columns: wavenumber, intensity")
|
| 161 |
+
|
| 162 |
+
if extension == ".npy":
|
| 163 |
+
spectra = np.load(file_path, allow_pickle=True)
|
| 164 |
+
return np.asarray(spectra, dtype=np.float32), None, "npy"
|
| 165 |
+
|
| 166 |
+
raise ValueError("Spectrum file must be .txt, .csv, or .npy")
|
| 167 |
+
|
| 168 |
+
|
| 169 |
+
def _load_prediction_wavenumbers(file_path: str) -> np.ndarray:
|
| 170 |
+
extension = os.path.splitext(file_path)[1].lower()
|
| 171 |
+
if extension in {".txt", ".csv"}:
|
| 172 |
+
data = _parse_numeric_text_file(file_path)
|
| 173 |
+
if data.ndim == 1:
|
| 174 |
+
return data.astype(np.float32).reshape(-1)
|
| 175 |
+
if data.ndim == 2 and data.shape[1] >= 1:
|
| 176 |
+
return data[:, 0].astype(np.float32).reshape(-1)
|
| 177 |
+
raise ValueError("Wavelength text file must contain one numeric column")
|
| 178 |
+
|
| 179 |
+
if extension == ".npy":
|
| 180 |
+
return np.asarray(np.load(file_path, allow_pickle=True), dtype=np.float32).reshape(-1)
|
| 181 |
+
|
| 182 |
+
raise ValueError("Wavelength file must be .txt, .csv, or .npy")
|
| 183 |
+
|
| 184 |
+
|
| 185 |
+
def _build_manual_wavenumbers(length: int, low_cm: float, high_cm: float) -> np.ndarray:
|
| 186 |
+
if low_cm is None or high_cm is None:
|
| 187 |
+
raise ValueError("Manual wavelength range requires both low and high values")
|
| 188 |
+
if high_cm <= low_cm:
|
| 189 |
+
raise ValueError("Manual wavelength range high value must be greater than low value")
|
| 190 |
+
return np.linspace(float(low_cm), float(high_cm), int(length), dtype=np.float32)
|
| 191 |
+
|
| 192 |
+
|
| 193 |
+
def _save_prediction_preview(prediction_dir: str, target_wavenumbers: np.ndarray, processed_spectra: np.ndarray) -> str:
|
| 194 |
+
spectra = np.asarray(processed_spectra, dtype=np.float32)
|
| 195 |
+
wavenumbers = np.asarray(target_wavenumbers, dtype=np.float32).reshape(-1)
|
| 196 |
+
if spectra.ndim != 2 or spectra.shape[1] != wavenumbers.shape[0]:
|
| 197 |
+
raise ValueError("processed spectra and wavenumbers must have matching 2D/1D shapes")
|
| 198 |
+
|
| 199 |
+
sample_count = spectra.shape[0]
|
| 200 |
+
preview_count = min(sample_count, 6)
|
| 201 |
+
fig, ax = plt.subplots(figsize=(8, 4.5))
|
| 202 |
+
for idx in range(preview_count):
|
| 203 |
+
label = f"Sample {idx + 1}" if sample_count > 1 else "Input spectrum"
|
| 204 |
+
ax.plot(wavenumbers, spectra[idx], linewidth=1.0, alpha=0.9, label=label)
|
| 205 |
+
|
| 206 |
+
ax.set_title(f"Input Spectra Preview ({sample_count} sample{'s' if sample_count != 1 else ''})")
|
| 207 |
+
ax.set_xlabel("Wavenumber (cm$^{-1}$)")
|
| 208 |
+
ax.set_ylabel("Normalized intensity")
|
| 209 |
+
ax.set_xlim(float(wavenumbers.min()), float(wavenumbers.max()))
|
| 210 |
+
ax.grid(True, linestyle="--", alpha=0.3)
|
| 211 |
+
if preview_count > 1:
|
| 212 |
+
ax.legend(frameon=False, fontsize=8)
|
| 213 |
+
fig.tight_layout()
|
| 214 |
+
|
| 215 |
+
preview_path = os.path.join(prediction_dir, "input_spectra_preview.png")
|
| 216 |
+
fig.savefig(preview_path, dpi=300, bbox_inches="tight")
|
| 217 |
+
plt.close(fig)
|
| 218 |
+
return preview_path
|
| 219 |
+
|
| 220 |
+
|
| 221 |
+
def _reap_job_process(job_id: str, process: multiprocessing.Process):
|
| 222 |
+
process.join()
|
| 223 |
+
JOB_PROCESSES.pop(job_id, None)
|
| 224 |
+
|
| 225 |
+
|
| 226 |
+
@app.get("/")
|
| 227 |
+
def index(request: Request):
|
| 228 |
+
return templates.TemplateResponse(request, "index.html", {"request": request})
|
| 229 |
+
|
| 230 |
+
|
| 231 |
+
@app.get("/predict")
|
| 232 |
+
def predict_page(request: Request):
|
| 233 |
+
return templates.TemplateResponse(request, "predict.html", {"request": request})
|
| 234 |
+
|
| 235 |
+
|
| 236 |
+
@app.post("/start")
|
| 237 |
+
def start_job(
|
| 238 |
+
request: Request,
|
| 239 |
+
spectral_file: UploadFile = File(...),
|
| 240 |
+
labels_file: UploadFile = File(...),
|
| 241 |
+
wavenumbers_file: UploadFile = File(...),
|
| 242 |
+
model_file: UploadFile = File(...),
|
| 243 |
+
label_mapping_file: Optional[UploadFile] = File(None),
|
| 244 |
+
epochs: int = Form(60),
|
| 245 |
+
lr: float = Form(1e-4),
|
| 246 |
+
weight_decay: float = Form(1e-3),
|
| 247 |
+
patience: int = Form(12),
|
| 248 |
+
batch_size: int = Form(64),
|
| 249 |
+
patch_num: int = Form(100),
|
| 250 |
+
embedding_dim: int = Form(512),
|
| 251 |
+
num_layers: int = Form(12),
|
| 252 |
+
num_heads: int = Form(16),
|
| 253 |
+
freeze_encoder: bool = Form(False),
|
| 254 |
+
label_smoothing: float = Form(0.0),
|
| 255 |
+
):
|
| 256 |
+
if _is_optional_file(label_mapping_file):
|
| 257 |
+
label_mapping_file = None
|
| 258 |
+
|
| 259 |
+
for f in [spectral_file, labels_file, wavenumbers_file, model_file] + ([label_mapping_file] if label_mapping_file is not None else []):
|
| 260 |
+
if not f.filename.endswith(".npy") and f is not model_file:
|
| 261 |
+
if f is label_mapping_file and os.path.splitext(f.filename)[1].lower() not in {".json", ".txt"}:
|
| 262 |
+
raise HTTPException(status_code=400, detail=f"{f.filename} must be .json or .txt")
|
| 263 |
+
elif f is not label_mapping_file:
|
| 264 |
+
raise HTTPException(status_code=400, detail=f"{f.filename} must be .npy")
|
| 265 |
+
if f is model_file and not f.filename.endswith(".pth"):
|
| 266 |
+
raise HTTPException(status_code=400, detail="Model must be .pth")
|
| 267 |
+
|
| 268 |
+
job_id = datetime.now().strftime("%Y%m%d_%H%M%S") + "_" + uuid.uuid4().hex[:8]
|
| 269 |
+
job_upload_dir = os.path.join(UPLOAD_DIR, job_id)
|
| 270 |
+
job_run_dir = os.path.join(RUNS_DIR, job_id)
|
| 271 |
+
os.makedirs(job_upload_dir, exist_ok=True)
|
| 272 |
+
os.makedirs(job_run_dir, exist_ok=True)
|
| 273 |
+
|
| 274 |
+
spectral_path = os.path.join(job_upload_dir, "spectral.npy")
|
| 275 |
+
labels_path = os.path.join(job_upload_dir, "labels.npy")
|
| 276 |
+
wavenumbers_path = os.path.join(job_upload_dir, "wavenumbers.npy")
|
| 277 |
+
model_path = os.path.join(job_upload_dir, "model.pth")
|
| 278 |
+
label_mapping_path = os.path.join(job_upload_dir, _safe_uploaded_name(label_mapping_file.filename)) if label_mapping_file is not None else None
|
| 279 |
+
|
| 280 |
+
_save_upload(spectral_file, spectral_path)
|
| 281 |
+
_save_upload(labels_file, labels_path)
|
| 282 |
+
_save_upload(wavenumbers_file, wavenumbers_path)
|
| 283 |
+
_save_upload(model_file, model_path)
|
| 284 |
+
if label_mapping_file is not None:
|
| 285 |
+
_save_upload(label_mapping_file, label_mapping_path)
|
| 286 |
+
|
| 287 |
+
config = TrainConfig(
|
| 288 |
+
epochs=epochs,
|
| 289 |
+
lr=lr,
|
| 290 |
+
weight_decay=weight_decay,
|
| 291 |
+
patience=patience,
|
| 292 |
+
batch_size=batch_size,
|
| 293 |
+
patch_num=patch_num,
|
| 294 |
+
embedding_dim=embedding_dim,
|
| 295 |
+
num_layers=num_layers,
|
| 296 |
+
num_heads=num_heads,
|
| 297 |
+
freeze_encoder=freeze_encoder,
|
| 298 |
+
label_smoothing=label_smoothing,
|
| 299 |
+
)
|
| 300 |
+
|
| 301 |
+
input_paths = {
|
| 302 |
+
"spectral": spectral_path,
|
| 303 |
+
"labels": labels_path,
|
| 304 |
+
"wavenumbers": wavenumbers_path,
|
| 305 |
+
"model": model_path,
|
| 306 |
+
"label_mapping": label_mapping_path,
|
| 307 |
+
}
|
| 308 |
+
|
| 309 |
+
JOBS[job_id] = {
|
| 310 |
+
"status": "queued",
|
| 311 |
+
"message": "Job queued",
|
| 312 |
+
"updated_at": datetime.now().isoformat(timespec="seconds"),
|
| 313 |
+
"progress": 0,
|
| 314 |
+
"phase": "queued",
|
| 315 |
+
"current_epoch": 0,
|
| 316 |
+
"total_epochs": epochs,
|
| 317 |
+
"device_label": "Detecting...",
|
| 318 |
+
"device_backend": "",
|
| 319 |
+
"device_name": "",
|
| 320 |
+
}
|
| 321 |
+
|
| 322 |
+
process = JOB_CONTEXT.Process(
|
| 323 |
+
target=run_finetune_job,
|
| 324 |
+
args=(job_id, input_paths, job_run_dir, config, JOBS),
|
| 325 |
+
daemon=False,
|
| 326 |
+
)
|
| 327 |
+
process.start()
|
| 328 |
+
JOB_PROCESSES[job_id] = process
|
| 329 |
+
Thread(target=_reap_job_process, args=(job_id, process), daemon=True).start()
|
| 330 |
+
job_record = dict(JOBS[job_id])
|
| 331 |
+
job_record["pid"] = process.pid
|
| 332 |
+
JOBS[job_id] = job_record
|
| 333 |
+
|
| 334 |
+
if request.headers.get("accept", "").find("application/json") >= 0 or request.headers.get("x-requested-with") == "XMLHttpRequest":
|
| 335 |
+
return JSONResponse({"job_id": job_id, "status_url": f"/status/{job_id}", "stop_url": f"/stop/{job_id}"})
|
| 336 |
+
|
| 337 |
+
return RedirectResponse(url=f"/status/{job_id}", status_code=303)
|
| 338 |
+
|
| 339 |
+
|
| 340 |
+
@app.post("/stop/{job_id}")
|
| 341 |
+
def stop_job(job_id: str):
|
| 342 |
+
if job_id not in JOBS:
|
| 343 |
+
raise HTTPException(status_code=404, detail="Job not found")
|
| 344 |
+
|
| 345 |
+
job = dict(JOBS[job_id])
|
| 346 |
+
if job.get("status") in {"done", "error", "cancelled"}:
|
| 347 |
+
raise HTTPException(status_code=409, detail="Job is already finished")
|
| 348 |
+
|
| 349 |
+
process = JOB_PROCESSES.get(job_id)
|
| 350 |
+
if process is not None:
|
| 351 |
+
if process.is_alive():
|
| 352 |
+
process.terminate()
|
| 353 |
+
process.join(timeout=5)
|
| 354 |
+
if process.is_alive():
|
| 355 |
+
process.kill()
|
| 356 |
+
process.join(timeout=5)
|
| 357 |
+
else:
|
| 358 |
+
pid = job.get("pid")
|
| 359 |
+
if pid:
|
| 360 |
+
try:
|
| 361 |
+
os.kill(int(pid), signal.SIGTERM)
|
| 362 |
+
except ProcessLookupError:
|
| 363 |
+
pass
|
| 364 |
+
|
| 365 |
+
JOBS[job_id] = {
|
| 366 |
+
**job,
|
| 367 |
+
"status": "cancelled",
|
| 368 |
+
"message": "Job cancelled by user",
|
| 369 |
+
"phase": "cancelled",
|
| 370 |
+
"progress": min(int(job.get("progress", 0) or 0), 99),
|
| 371 |
+
"updated_at": datetime.now().isoformat(timespec="seconds"),
|
| 372 |
+
}
|
| 373 |
+
return JSONResponse({"job_id": job_id, "status": "cancelled"})
|
| 374 |
+
|
| 375 |
+
|
| 376 |
+
@app.post("/predict")
|
| 377 |
+
def run_prediction(
|
| 378 |
+
request: Request,
|
| 379 |
+
spectral_file: UploadFile = File(...),
|
| 380 |
+
wavenumbers_file: Optional[UploadFile] = File(None),
|
| 381 |
+
model_file: UploadFile = File(...),
|
| 382 |
+
label_mapping_file: Optional[UploadFile] = File(None),
|
| 383 |
+
manual_low_cm: Optional[float] = Form(None),
|
| 384 |
+
manual_high_cm: Optional[float] = Form(None),
|
| 385 |
+
):
|
| 386 |
+
if _is_blank_upload(spectral_file):
|
| 387 |
+
raise HTTPException(status_code=400, detail="Please choose a spectral file before running prediction.")
|
| 388 |
+
if _is_blank_upload(model_file):
|
| 389 |
+
raise HTTPException(status_code=400, detail="Please choose a saved model (.pth) before running prediction.")
|
| 390 |
+
|
| 391 |
+
if _is_blank_upload(wavenumbers_file):
|
| 392 |
+
wavenumbers_file = None
|
| 393 |
+
|
| 394 |
+
if _is_optional_file(label_mapping_file):
|
| 395 |
+
label_mapping_file = None
|
| 396 |
+
|
| 397 |
+
spectral_name = _safe_uploaded_name(spectral_file.filename)
|
| 398 |
+
model_name = _safe_uploaded_name(model_file.filename)
|
| 399 |
+
wavenumbers_name = _safe_uploaded_name(wavenumbers_file.filename) if wavenumbers_file is not None else None
|
| 400 |
+
label_mapping_name = _safe_uploaded_name(label_mapping_file.filename) if label_mapping_file is not None else None
|
| 401 |
+
|
| 402 |
+
if os.path.splitext(model_name)[1].lower() != ".pth":
|
| 403 |
+
raise HTTPException(status_code=400, detail="Model file must be .pth")
|
| 404 |
+
|
| 405 |
+
spectral_ext = os.path.splitext(spectral_name)[1].lower()
|
| 406 |
+
if spectral_ext not in {".npy", ".txt", ".csv"}:
|
| 407 |
+
raise HTTPException(status_code=400, detail="Spectral file must be .npy, .txt, or .csv")
|
| 408 |
+
|
| 409 |
+
if wavenumbers_file is not None:
|
| 410 |
+
wavenumbers_ext = os.path.splitext(wavenumbers_name or "")[1].lower()
|
| 411 |
+
if wavenumbers_ext not in {".npy", ".txt", ".csv"}:
|
| 412 |
+
raise HTTPException(status_code=400, detail="Wavelength file must be .npy, .txt, or .csv")
|
| 413 |
+
|
| 414 |
+
if label_mapping_file is not None:
|
| 415 |
+
label_mapping_ext = os.path.splitext(label_mapping_name or "")[1].lower()
|
| 416 |
+
if label_mapping_ext not in {".json", ".txt"}:
|
| 417 |
+
raise HTTPException(status_code=400, detail="True label mapping file must be .json or .txt")
|
| 418 |
+
|
| 419 |
+
prediction_id = datetime.now().strftime("%Y%m%d_%H%M%S") + "_" + uuid.uuid4().hex[:8]
|
| 420 |
+
prediction_dir = os.path.join(PREDICTIONS_DIR, prediction_id)
|
| 421 |
+
os.makedirs(prediction_dir, exist_ok=True)
|
| 422 |
+
|
| 423 |
+
spectral_path = os.path.join(prediction_dir, spectral_name)
|
| 424 |
+
wavenumbers_path = os.path.join(prediction_dir, wavenumbers_name) if wavenumbers_name is not None else None
|
| 425 |
+
model_path = os.path.join(prediction_dir, model_name)
|
| 426 |
+
label_mapping_path = os.path.join(prediction_dir, label_mapping_name) if label_mapping_name is not None else None
|
| 427 |
+
|
| 428 |
+
_save_upload(spectral_file, spectral_path)
|
| 429 |
+
_save_upload(model_file, model_path)
|
| 430 |
+
if wavenumbers_file is not None:
|
| 431 |
+
_save_upload(wavenumbers_file, wavenumbers_path)
|
| 432 |
+
if label_mapping_file is not None:
|
| 433 |
+
_save_upload(label_mapping_file, label_mapping_path)
|
| 434 |
+
|
| 435 |
+
display_label_mapping = None
|
| 436 |
+
if label_mapping_path is not None:
|
| 437 |
+
display_label_mapping = load_label_mapping(label_mapping_path)
|
| 438 |
+
|
| 439 |
+
try:
|
| 440 |
+
spectral, inferred_wavenumbers, spectrum_source = _load_prediction_spectrum(spectral_path)
|
| 441 |
+
|
| 442 |
+
if inferred_wavenumbers is not None:
|
| 443 |
+
wavenumbers = inferred_wavenumbers
|
| 444 |
+
wavenumber_source = "embedded_in_spectrum"
|
| 445 |
+
elif wavenumbers_file is not None:
|
| 446 |
+
wavenumbers = _load_prediction_wavenumbers(wavenumbers_path)
|
| 447 |
+
wavenumber_source = "uploaded_wavelength_file"
|
| 448 |
+
elif manual_low_cm is not None or manual_high_cm is not None:
|
| 449 |
+
if manual_low_cm is None or manual_high_cm is None:
|
| 450 |
+
raise ValueError("Manual wavelength range requires both low and high values")
|
| 451 |
+
wavenumbers = _build_manual_wavenumbers(spectral.shape[-1], manual_low_cm, manual_high_cm)
|
| 452 |
+
wavenumber_source = "manual_range"
|
| 453 |
+
else:
|
| 454 |
+
raise HTTPException(
|
| 455 |
+
status_code=400,
|
| 456 |
+
detail="No wavelength information found in the spectrum file. Upload a wavelength file or provide a manual wavelength range.",
|
| 457 |
+
)
|
| 458 |
+
|
| 459 |
+
if spectral.ndim == 1:
|
| 460 |
+
spectral = spectral.reshape(1, -1)
|
| 461 |
+
if spectral.ndim != 2:
|
| 462 |
+
raise ValueError(f"Spectrum data must be 1D or 2D after loading, got shape {spectral.shape}")
|
| 463 |
+
|
| 464 |
+
preview_path = _save_prediction_preview(prediction_dir, wavenumbers, spectral)
|
| 465 |
+
except ValueError as exc:
|
| 466 |
+
raise HTTPException(status_code=400, detail=str(exc)) from exc
|
| 467 |
+
|
| 468 |
+
device = torch.device("cuda" if torch.cuda.is_available() else "cpu")
|
| 469 |
+
|
| 470 |
+
try:
|
| 471 |
+
results = predict_with_checkpoint(model_path, spectral, wavenumbers, device, display_label_mapping=display_label_mapping)
|
| 472 |
+
except (ValueError, RuntimeError) as exc:
|
| 473 |
+
raise HTTPException(status_code=400, detail=str(exc)) from exc
|
| 474 |
+
|
| 475 |
+
# Ensure we display mapped (human) labels when available. Prefer explicit display mapping
|
| 476 |
+
display_class_names = apply_label_mapping(
|
| 477 |
+
results.get("raw_class_names", results.get("class_names", [])),
|
| 478 |
+
display_label_mapping or results.get("checkpoint_label_mapping"),
|
| 479 |
+
)
|
| 480 |
+
|
| 481 |
+
top5_rows = []
|
| 482 |
+
top5_indices = np.argsort(results["logits"], axis=1)[:, ::-1][:, : min(5, results["logits"].shape[1])]
|
| 483 |
+
top5_logits = np.take_along_axis(results["logits"], top5_indices, axis=1)
|
| 484 |
+
for idx, (indices_row, logits_row) in enumerate(zip(top5_indices, top5_logits), start=1):
|
| 485 |
+
top5_rows.append(
|
| 486 |
+
{
|
| 487 |
+
"sample_index": idx,
|
| 488 |
+
"top5": [
|
| 489 |
+
{
|
| 490 |
+
"rank": rank + 1,
|
| 491 |
+
"class_name": display_class_names[class_idx] if class_idx < len(display_class_names) else str(class_idx),
|
| 492 |
+
"logit": float(logit_value),
|
| 493 |
+
}
|
| 494 |
+
for rank, (class_idx, logit_value) in enumerate(zip(indices_row.tolist(), logits_row.tolist()))
|
| 495 |
+
],
|
| 496 |
+
}
|
| 497 |
+
)
|
| 498 |
+
|
| 499 |
+
rows = []
|
| 500 |
+
for idx, (pred_index, confidence) in enumerate(
|
| 501 |
+
zip(results["pred_indices"], results["confidences"]),
|
| 502 |
+
start=1,
|
| 503 |
+
):
|
| 504 |
+
pred_index = int(pred_index)
|
| 505 |
+
pred_label_display = display_class_names[pred_index] if pred_index < len(display_class_names) else str(pred_index)
|
| 506 |
+
rows.append(
|
| 507 |
+
{
|
| 508 |
+
"sample_index": idx,
|
| 509 |
+
"pred_index": pred_index,
|
| 510 |
+
"pred_label": pred_label_display,
|
| 511 |
+
"confidence": float(confidence),
|
| 512 |
+
}
|
| 513 |
+
)
|
| 514 |
+
|
| 515 |
+
csv_path = os.path.join(prediction_dir, "predictions.csv")
|
| 516 |
+
with open(csv_path, "w", encoding="utf-8") as f:
|
| 517 |
+
f.write("sample_index,predicted_index,predicted_label,confidence\n")
|
| 518 |
+
for row in rows:
|
| 519 |
+
f.write(
|
| 520 |
+
f"{row['sample_index']},{row['pred_index']},{row['pred_label']},{row['confidence']:.6f}\n"
|
| 521 |
+
)
|
| 522 |
+
|
| 523 |
+
summary = {
|
| 524 |
+
"prediction_id": prediction_id,
|
| 525 |
+
"num_samples": len(rows),
|
| 526 |
+
"class_names": results["class_names"],
|
| 527 |
+
"raw_class_names": results.get("raw_class_names", []),
|
| 528 |
+
"model_config": results["model_config"],
|
| 529 |
+
"preprocess_config": results["preprocess_config"],
|
| 530 |
+
"download_csv": f"/predictions/{prediction_id}/predictions.csv",
|
| 531 |
+
"preview_image": f"/predictions/{prediction_id}/{os.path.basename(preview_path)}",
|
| 532 |
+
"spectrum_source": spectrum_source,
|
| 533 |
+
"wavenumber_source": wavenumber_source,
|
| 534 |
+
"label_mapping_source": label_mapping_name or ("checkpoint" if results.get("checkpoint_label_mapping") else None),
|
| 535 |
+
}
|
| 536 |
+
with open(os.path.join(prediction_dir, "prediction_summary.json"), "w", encoding="utf-8") as f:
|
| 537 |
+
json.dump(summary, f, indent=2, ensure_ascii=False)
|
| 538 |
+
|
| 539 |
+
if request.headers.get("accept", "").find("application/json") >= 0 or request.headers.get("x-requested-with") == "XMLHttpRequest":
|
| 540 |
+
return JSONResponse(
|
| 541 |
+
{
|
| 542 |
+
"prediction_id": prediction_id,
|
| 543 |
+
"summary": summary,
|
| 544 |
+
"rows": rows,
|
| 545 |
+
"top5_rows": top5_rows,
|
| 546 |
+
"download_csv": summary["download_csv"],
|
| 547 |
+
"preview_image": summary["preview_image"],
|
| 548 |
+
"results_html": _render_predict_results_fragment(
|
| 549 |
+
prediction_id,
|
| 550 |
+
summary,
|
| 551 |
+
rows,
|
| 552 |
+
top5_rows,
|
| 553 |
+
summary["download_csv"],
|
| 554 |
+
summary["preview_image"],
|
| 555 |
+
),
|
| 556 |
+
}
|
| 557 |
+
)
|
| 558 |
+
|
| 559 |
+
return templates.TemplateResponse(
|
| 560 |
+
request,
|
| 561 |
+
"predict.html",
|
| 562 |
+
{
|
| 563 |
+
"request": request,
|
| 564 |
+
"prediction_id": prediction_id,
|
| 565 |
+
"summary": summary,
|
| 566 |
+
"rows": rows,
|
| 567 |
+
"top5_rows": top5_rows,
|
| 568 |
+
"download_csv": summary["download_csv"],
|
| 569 |
+
"preview_image": summary["preview_image"],
|
| 570 |
+
},
|
| 571 |
+
)
|
| 572 |
+
|
| 573 |
+
|
| 574 |
+
@app.get("/status/{job_id}")
|
| 575 |
+
def status_page(job_id: str, request: Request):
|
| 576 |
+
if job_id not in JOBS:
|
| 577 |
+
raise HTTPException(status_code=404, detail="Job not found")
|
| 578 |
+
job = {
|
| 579 |
+
"status": "queued",
|
| 580 |
+
"message": "Job queued",
|
| 581 |
+
"updated_at": None,
|
| 582 |
+
"progress": 0,
|
| 583 |
+
"phase": "queued",
|
| 584 |
+
"current_epoch": 0,
|
| 585 |
+
"total_epochs": 0,
|
| 586 |
+
"device_label": "Detecting...",
|
| 587 |
+
"device_backend": "",
|
| 588 |
+
"device_name": "",
|
| 589 |
+
**JOBS[job_id],
|
| 590 |
+
}
|
| 591 |
+
if not job.get("total_epochs"):
|
| 592 |
+
job["total_epochs"] = 0
|
| 593 |
+
can_stop = job.get("status") in {"queued", "running"}
|
| 594 |
+
summary = job.get("summary", {}) or {}
|
| 595 |
+
artifact_map = summary.get("artifacts", {}) or {}
|
| 596 |
+
run_dir = os.path.join(RUNS_DIR, job_id)
|
| 597 |
+
report_path = os.path.join(run_dir, artifact_map.get("classification_report", "classification_report.txt"))
|
| 598 |
+
|
| 599 |
+
visual_keys = ["training_history", "tsne", "confusion_matrix"]
|
| 600 |
+
download_keys = [
|
| 601 |
+
"training_history",
|
| 602 |
+
"tsne",
|
| 603 |
+
"confusion_matrix",
|
| 604 |
+
"roc_curves",
|
| 605 |
+
"classification_report",
|
| 606 |
+
"final_model",
|
| 607 |
+
"best_class_model",
|
| 608 |
+
"best_recon_model",
|
| 609 |
+
]
|
| 610 |
+
|
| 611 |
+
visual_artifacts = []
|
| 612 |
+
download_artifacts = []
|
| 613 |
+
for key in visual_keys + download_keys:
|
| 614 |
+
filename = artifact_map.get(key)
|
| 615 |
+
if not filename:
|
| 616 |
+
continue
|
| 617 |
+
file_path = os.path.join(run_dir, filename)
|
| 618 |
+
if not os.path.isfile(file_path):
|
| 619 |
+
continue
|
| 620 |
+
artifact_info = {
|
| 621 |
+
"key": key,
|
| 622 |
+
"filename": filename,
|
| 623 |
+
"url": f"/runs/{job_id}/{filename}",
|
| 624 |
+
"is_image": filename.lower().endswith((".png", ".jpg", ".jpeg", ".webp", ".gif")),
|
| 625 |
+
}
|
| 626 |
+
if key in visual_keys and artifact_info["is_image"]:
|
| 627 |
+
visual_artifacts.append(artifact_info)
|
| 628 |
+
if key in download_keys:
|
| 629 |
+
download_artifacts.append(artifact_info)
|
| 630 |
+
|
| 631 |
+
return templates.TemplateResponse(
|
| 632 |
+
request,
|
| 633 |
+
"status.html",
|
| 634 |
+
{
|
| 635 |
+
"request": request,
|
| 636 |
+
"job_id": job_id,
|
| 637 |
+
"job": job,
|
| 638 |
+
"summary": summary,
|
| 639 |
+
"can_stop": can_stop,
|
| 640 |
+
"visual_artifacts": visual_artifacts,
|
| 641 |
+
"download_artifacts": download_artifacts,
|
| 642 |
+
"report_text": _load_report_text(report_path),
|
| 643 |
+
},
|
| 644 |
+
)
|
| 645 |
+
|
| 646 |
+
|
| 647 |
+
@app.get("/api/status/{job_id}")
|
| 648 |
+
def status_api(job_id: str):
|
| 649 |
+
if job_id not in JOBS:
|
| 650 |
+
raise HTTPException(status_code=404, detail="Job not found")
|
| 651 |
+
return JOBS[job_id]
|
| 652 |
+
|
| 653 |
+
|
| 654 |
+
@app.get("/runs/{job_id}/{filename}")
|
| 655 |
+
def job_artifact(job_id: str, filename: str):
|
| 656 |
+
file_path = _safe_result_file(RUNS_DIR, job_id, filename)
|
| 657 |
+
return FileResponse(file_path, filename=os.path.basename(file_path))
|
| 658 |
+
|
| 659 |
+
|
| 660 |
+
@app.get("/predictions/{prediction_id}/{filename}")
|
| 661 |
+
def prediction_artifact(prediction_id: str, filename: str):
|
| 662 |
+
file_path = _safe_result_file(PREDICTIONS_DIR, prediction_id, filename)
|
| 663 |
+
return FileResponse(file_path, filename=os.path.basename(file_path))
|
requirements.txt
ADDED
|
@@ -0,0 +1,16 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
fastapi
|
| 2 |
+
uvicorn
|
| 3 |
+
python-multipart
|
| 4 |
+
jinja2
|
| 5 |
+
matplotlib==3.10.8
|
| 6 |
+
numpy==2.4.1
|
| 7 |
+
optuna==4.6.0
|
| 8 |
+
pandas==3.0.0
|
| 9 |
+
scikit-learn
|
| 10 |
+
scipy==1.17.0
|
| 11 |
+
seaborn==0.13.2
|
| 12 |
+
timm==1.0.24
|
| 13 |
+
torch==2.9.1+rocm6.4
|
| 14 |
+
torchvision==0.24.1+rocm6.4
|
| 15 |
+
tqdm==4.67.1
|
| 16 |
+
umap-learn==0.5.9.post2
|