scitex 2.5.0__py3-none-any.whl → 2.7.3__py3-none-any.whl

scitex/plt/gallery/_registry.py

@@ -0,0 +1,153 @@
+#!/usr/bin/env python3
+# -*- coding: utf-8 -*-
+# Timestamp: "2025-12-08 23:30:00 (ywatanabe)"
+# File: /home/ywatanabe/proj/scitex-code/src/scitex/plt/gallery/_registry.py
+
+"""Plot registry organized by visualization purpose."""
+
+import numpy as np
+
+# Categories organized by visualization purpose
+CATEGORIES = {
+    "line": {
+        "name": "Line Plots",
+        "description": "Time series, trends, and continuous data",
+        "plots": [
+            "plot",
+            "step",
+            "stx_line",
+            "stx_shaded_line",
+        ],
+    },
+    "statistical": {
+        "name": "Statistical Summaries",
+        "description": "Mean, CI, std, and aggregated views",
+        "plots": [
+            "stx_mean_std",
+            "stx_mean_ci",
+            "stx_median_iqr",
+            "errorbar",
+            "stx_errorbar",
+        ],
+    },
+    "distribution": {
+        "name": "Distributions",
+        "description": "KDE, histograms, density estimation",
+        "plots": [
+            "hist",
+            "hist2d",
+            "stx_kde",
+            "stx_ecdf",
+            "stx_joyplot",
+        ],
+    },
+    "categorical": {
+        "name": "Categorical",
+        "description": "Bar charts, box plots, violin plots",
+        "plots": [
+            "bar",
+            "barh",
+            "stx_bar",
+            "stx_barh",
+            "boxplot",
+            "violinplot",
+            "stx_box",
+            "stx_violin",
+            "stx_boxplot",
+            "stx_violinplot",
+        ],
+    },
+    "scatter": {
+        "name": "Scatter & Points",
+        "description": "Point clouds, correlations",
+        "plots": [
+            "scatter",
+            "stx_scatter",
+            "stem",
+            "hexbin",
+        ],
+    },
+    "area": {
+        "name": "Area & Fill",
+        "description": "Filled regions, ranges",
+        "plots": [
+            "fill_between",
+            "fill_betweenx",
+            "stx_fill_between",
+            "stx_fillv",
+        ],
+    },
+    "grid": {
+        "name": "Grid & Matrix",
+        "description": "Heatmaps, images, confusion matrices",
+        "plots": [
+            "imshow",
+            "matshow",
+            "stx_imshow",
+            "stx_image",
+            "stx_heatmap",
+            "stx_conf_mat",
+        ],
+    },
+    "contour": {
+        "name": "Contours",
+        "description": "Contour lines and filled contours",
+        "plots": [
+            "contour",
+            "contourf",
+            "stx_contour",
+        ],
+    },
+    "vector": {
+        "name": "Vector Fields",
+        "description": "Quiver, streamlines",
+        "plots": [
+            "quiver",
+            "streamplot",
+        ],
+    },
+    "special": {
+        "name": "Special",
+        "description": "Pie charts, rasters, annotations",
+        "plots": [
+            "pie",
+            "stx_raster",
+            "stx_rectangle",
+        ],
+    },
+}
+
+
+def list_plots(category=None):
+    """List available plots.
+
+    Parameters
+    ----------
+    category : str, optional
+        If provided, list plots in that category only.
+
+    Returns
+    -------
+    dict or list
+        If category is None, returns dict of all categories.
+        If category is provided, returns list of plots in that category.
+    """
+    if category is None:
+        return {
+            cat: {
+                "name": info["name"],
+                "description": info["description"],
+                "plots": info["plots"],
+            }
+            for cat, info in CATEGORIES.items()
+        }
+
+    if category not in CATEGORIES:
+        raise ValueError(
+            f"Unknown category: {category}. Available: {list(CATEGORIES.keys())}"
+        )
+
+    return CATEGORIES[category]["plots"]
+
+
+# EOF

scitex/plt/io/__init__.py

@@ -0,0 +1,53 @@
+#!/usr/bin/env python3
+# -*- coding: utf-8 -*-
+# Timestamp: "2025-12-13 (ywatanabe)"
+# File: /home/ywatanabe/proj/scitex-code/src/scitex/plt/io/__init__.py
+
+"""
+I/O operations for scitex.plt - Plot bundles (.pltz).
+
+This module handles:
+    - .pltz bundle load/save operations (legacy and layered formats)
+    - CSV data export/import
+    - Hitmap generation and storage
+    - Bundle overview generation
+
+Layered Format (v2.0):
+    plot.pltz.d/
+        spec.json           # Semantic: WHAT to plot
+        style.json          # Appearance: HOW it looks
+        data.csv            # Raw data
+        exports/            # Preview images
+        cache/              # Regenerable geometry data
+"""
+
+from ._bundle import (
+    validate_pltz_spec,
+    load_pltz_bundle,
+    save_pltz_bundle,
+    generate_bundle_overview,
+    PLTZ_SCHEMA_SPEC,
+)
+
+from ._layered_bundle import (
+    save_layered_pltz_bundle,
+    load_layered_pltz_bundle,
+    merge_layered_bundle,
+    is_layered_bundle,
+)
+
+__all__ = [
+    # Legacy bundle operations
+    "validate_pltz_spec",
+    "load_pltz_bundle",
+    "save_pltz_bundle",
+    "generate_bundle_overview",
+    "PLTZ_SCHEMA_SPEC",
+    # Layered bundle operations (v2.0)
+    "save_layered_pltz_bundle",
+    "load_layered_pltz_bundle",
+    "merge_layered_bundle",
+    "is_layered_bundle",
+]
+
+# EOF

scitex/plt/io/_bundle.py

@@ -0,0 +1,490 @@
+#!/usr/bin/env python3
+# -*- coding: utf-8 -*-
+# Timestamp: "2025-12-13 (ywatanabe)"
+# File: /home/ywatanabe/proj/scitex-code/src/scitex/plt/io/_bundle.py
+
+"""
+SciTeX .pltz Bundle I/O - Plot-specific bundle operations.
+
+Handles:
+    - Plot specification validation
+    - CSV data loading/saving
+    - Hitmap PNG/SVG generation and storage
+    - Bundle overview image generation
+"""
+
+import json
+import shutil
+import warnings
+from pathlib import Path
+from typing import Any, Dict, List
+
+import numpy as np
+
+from scitex.plt.styles import get_preview_dpi
+
+__all__ = [
+    "validate_pltz_spec",
+    "load_pltz_bundle",
+    "save_pltz_bundle",
+    "generate_bundle_overview",
+    "PLTZ_SCHEMA_SPEC",
+]
+
+# Schema specification for .pltz bundles
+PLTZ_SCHEMA_SPEC = {
+    "name": "scitex.plt.plot",
+    "version": "1.0.0",
+    "required_fields": ["schema"],
+    "optional_fields": [
+        "backend",
+        "plot_type",
+        "data",
+        "axes",
+        "styles",
+        "stats",
+    ],
+}
+
+
+def validate_pltz_spec(spec: Dict[str, Any]) -> List[str]:
+    """Validate .pltz-specific fields.
+
+    Args:
+        spec: The specification dictionary to validate.
+
+    Returns:
+        List of validation error messages (empty if valid).
+    """
+    errors = []
+
+    if "axes" in spec:
+        axes = spec["axes"]
+        if not isinstance(axes, (dict, list)):
+            errors.append("'axes' must be a dictionary or list")
+
+    return errors
+
+
+def load_pltz_bundle(bundle_dir: Path) -> Dict[str, Any]:
+    """Load .pltz bundle contents from directory.
+
+    Args:
+        bundle_dir: Path to the bundle directory.
+
+    Returns:
+        Dictionary with loaded bundle contents.
+    """
+    result = {}
+
+    # Find the spec file (could be plot.json or {basename}.json)
+    spec_file = None
+    for f in bundle_dir.glob("*.json"):
+        if not f.name.startswith('.'):  # Skip hidden files
+            spec_file = f
+            break
+
+    if spec_file and spec_file.exists():
+        with open(spec_file, "r") as f:
+            result["spec"] = json.load(f)
+        # Extract basename from spec filename
+        result["basename"] = spec_file.stem
+    else:
+        result["spec"] = None
+        result["basename"] = "plot"  # Default
+
+    # Find and load CSV data (could be plot.csv or {basename}.csv)
+    csv_file = None
+    for f in bundle_dir.glob("*.csv"):
+        if not f.name.startswith('.'):  # Skip hidden files
+            csv_file = f
+            break
+
+    if csv_file and csv_file.exists():
+        try:
+            import pandas as pd
+            result["data"] = pd.read_csv(csv_file)
+        except ImportError:
+            # Fallback to basic CSV reading
+            with open(csv_file, "r") as f:
+                result["data"] = f.read()
+
+    return result
+
+
+def save_pltz_bundle(data: Dict[str, Any], dir_path: Path) -> None:
+    """Save .pltz bundle contents to directory.
+
+    Args:
+        data: Bundle data dictionary containing:
+            - spec: JSON specification
+            - data: CSV data (DataFrame or string)
+            - basename: Base filename for all exports (e.g., "myplot")
+            - png, svg, pdf: Export file data
+            - hitmap_png, hitmap_svg: Hitmap file data
+        dir_path: Path to the bundle directory.
+    """
+    # Get basename from data, fallback to "plot" for backward compatibility
+    basename = data.get("basename", "plot")
+
+    # Save specification
+    spec = data.get("spec", {})
+    spec_file = dir_path / f"{basename}.json"
+    with open(spec_file, "w") as f:
+        json.dump(spec, f, indent=2)
+
+    # Save CSV data
+    if "data" in data:
+        csv_file = dir_path / f"{basename}.csv"
+        df = data["data"]
+        if hasattr(df, "to_csv"):
+            df.to_csv(csv_file, index=False)
+        else:
+            with open(csv_file, "w") as f:
+                f.write(str(df))
+
+    # Save exports (PNG, SVG, PDF)
+    _save_exports(data, dir_path, spec, basename)
+
+    # Save hitmaps
+    _save_hitmaps(data, dir_path, basename)
+
+    # Generate overview
+    try:
+        generate_bundle_overview(dir_path, spec, data, basename)
+    except Exception as e:
+        import logging
+        logging.getLogger("scitex").debug(f"Could not generate overview: {e}")
+
+
+def _save_exports(data: Dict[str, Any], dir_path: Path, spec: Dict, basename: str = "plot") -> None:
+    """Save export files (PNG, SVG, PDF) with embedded metadata."""
+    from scitex.io._metadata import embed_metadata
+
+    for fmt in ["png", "svg", "pdf"]:
+        if fmt not in data:
+            continue
+
+        out_file = dir_path / f"{basename}.{fmt}"
+        export_data = data[fmt]
+
+        if isinstance(export_data, bytes):
+            with open(out_file, "wb") as f:
+                f.write(export_data)
+        elif isinstance(export_data, (str, Path)) and Path(export_data).exists():
+            shutil.copy(export_data, out_file)
+
+        # Embed metadata into PNG and PDF files
+        if out_file.exists() and spec:
+            try:
+                _embed_metadata_in_export(out_file, spec, fmt)
+            except Exception as e:
+                import logging
+                logging.getLogger("scitex").debug(
+                    f"Could not embed metadata in {out_file}: {e}"
+                )
+
+
+def _embed_metadata_in_export(
+    file_path: Path, spec: Dict[str, Any], fmt: str
+) -> None:
+    """Embed bundle spec metadata into exported image files."""
+    from scitex.io._metadata import embed_metadata
+
+    embed_data = {
+        "scitex_bundle": True,
+        "schema": spec.get("schema", {}),
+    }
+
+    for key in ["plot_type", "backend", "size", "axes", "figure", "panels"]:
+        if key in spec:
+            embed_data[key] = spec[key]
+
+    if fmt in ("png", "svg", "pdf"):
+        embed_metadata(str(file_path), embed_data)
+
+
+def _save_hitmaps(data: Dict[str, Any], dir_path: Path, basename: str = "plot") -> None:
+    """Save hitmap PNG and SVG files."""
+    # Save hitmap PNG
+    if "hitmap_png" in data:
+        hitmap_file = dir_path / f"{basename}_hitmap.png"
+        hitmap_data = data["hitmap_png"]
+        if isinstance(hitmap_data, bytes):
+            with open(hitmap_file, "wb") as f:
+                f.write(hitmap_data)
+        elif isinstance(hitmap_data, (str, Path)) and Path(hitmap_data).exists():
+            shutil.copy(hitmap_data, hitmap_file)
+
+    # Save hitmap SVG
+    if "hitmap_svg" in data:
+        hitmap_svg_file = dir_path / f"{basename}_hitmap.svg"
+        hitmap_svg_data = data["hitmap_svg"]
+        if isinstance(hitmap_svg_data, bytes):
+            with open(hitmap_svg_file, "wb") as f:
+                f.write(hitmap_svg_data)
+        elif isinstance(hitmap_svg_data, (str, Path)) and Path(hitmap_svg_data).exists():
+            shutil.copy(hitmap_svg_data, hitmap_svg_file)
+
+
+def generate_bundle_overview(dir_path: Path, spec: Dict, data: Dict, basename: str = "plot") -> None:
+    """Generate overview image showing bundle contents visually.
+
+    Creates a comprehensive overview image with:
+    - CSV statistics (columns, rows, dtypes)
+    - JSON structure as tree
+    - Figures grid (PNG, hitmap, diff overlay)
+
+    Parameters
+    ----------
+    dir_path : Path
+        Bundle directory path.
+    spec : dict
+        Bundle specification.
+    data : dict
+        Bundle data dictionary.
+    basename : str
+        Base filename for bundle files (e.g., "myplot").
+    """
+    import matplotlib.pyplot as plt
+    import matplotlib.gridspec as gridspec
+    from PIL import Image
+
+    # Create figure with custom layout
+    fig = plt.figure(figsize=(16, 10), facecolor="white")
+    gs = gridspec.GridSpec(
+        2, 4, figure=fig, hspace=0.3, wspace=0.3,
+        left=0.05, right=0.95, top=0.92, bottom=0.05,
+    )
+
+    # Title
+    bundle_name = dir_path.name
+    fig.suptitle(f"Bundle Overview: {bundle_name}", fontsize=16, fontweight="bold")
+
+    # === Panel 1: CSV Statistics ===
+    ax_csv = fig.add_subplot(gs[0, 0])
+    ax_csv.set_title("CSV Data", fontweight="bold", fontsize=11)
+    ax_csv.axis("off")
+
+    csv_text = []
+    if "data" in data and hasattr(data["data"], "columns"):
+        df = data["data"]
+        csv_text.append(f"Rows: {len(df)}")
+        csv_text.append(f"Columns: {len(df.columns)}")
+        csv_text.append("")
+        csv_text.append("Columns:")
+        for col in df.columns[:10]:
+            dtype = str(df[col].dtype)
+            csv_text.append(f"  • {col} ({dtype})")
+        if len(df.columns) > 10:
+            csv_text.append(f"  ... +{len(df.columns) - 10} more")
+    else:
+        csv_text.append("No CSV data")
+
+    ax_csv.text(
+        0.05, 0.95, "\n".join(csv_text),
+        transform=ax_csv.transAxes, fontsize=9, verticalalignment="top",
+        fontfamily="monospace",
+        bbox=dict(boxstyle="round", facecolor="#f0f0f0", alpha=0.8),
+    )
+
+    # === Panel 2: JSON Tree ===
+    ax_json = fig.add_subplot(gs[0, 1])
+    ax_json.set_title("JSON Structure", fontweight="bold", fontsize=11)
+    ax_json.axis("off")
+
+    json_lines = _json_to_tree(spec, max_depth=4, max_keys=8, max_lines=25)
+    ax_json.text(
+        0.02, 0.98, "\n".join(json_lines),
+        transform=ax_json.transAxes, fontsize=7, verticalalignment="top",
+        fontfamily="monospace",
+        bbox=dict(boxstyle="round", facecolor="#f0f0f0", alpha=0.8),
+    )
+
+    # === Panel 3: PNG Image ===
+    ax_png = fig.add_subplot(gs[0, 2])
+    ax_png.set_title(f"{basename}.png", fontweight="bold", fontsize=11)
+    png_path = dir_path / f"{basename}.png"
+    if png_path.exists():
+        png_img = Image.open(png_path)
+        ax_png.imshow(png_img)
+        ax_png.set_xlabel(f"{png_img.size[0]}×{png_img.size[1]}", fontsize=9)
+    ax_png.axis("off")
+
+    # === Panel 4: Hitmap PNG ===
+    ax_hitmap = fig.add_subplot(gs[0, 3])
+    ax_hitmap.set_title(f"{basename}_hitmap.png", fontweight="bold", fontsize=11)
+    hitmap_path = dir_path / f"{basename}_hitmap.png"
+    if hitmap_path.exists():
+        hitmap_img = Image.open(hitmap_path)
+        ax_hitmap.imshow(hitmap_img)
+        ax_hitmap.set_xlabel(f"{hitmap_img.size[0]}×{hitmap_img.size[1]}", fontsize=9)
+    ax_hitmap.axis("off")
+
+    # === Panel 5: SVG info ===
+    ax_svg = fig.add_subplot(gs[1, 0])
+    ax_svg.set_title(f"{basename}.svg", fontweight="bold", fontsize=11)
+    svg_path = dir_path / f"{basename}.svg"
+    if svg_path.exists():
+        svg_size = svg_path.stat().st_size
+        ax_svg.text(
+            0.5, 0.5, f"SVG File\n{svg_size/1024:.1f} KB",
+            transform=ax_svg.transAxes, ha="center", va="center",
+            fontsize=12, bbox=dict(boxstyle="round", facecolor="#e0e0ff"),
+        )
+    ax_svg.axis("off")
+
+    # === Panel 6: Hitmap SVG ===
+    ax_hitmap_svg = fig.add_subplot(gs[1, 1])
+    ax_hitmap_svg.set_title(f"{basename}_hitmap.svg", fontweight="bold", fontsize=11)
+    hitmap_svg_path = dir_path / f"{basename}_hitmap.svg"
+    if hitmap_svg_path.exists():
+        svg_size = hitmap_svg_path.stat().st_size
+        ax_hitmap_svg.text(
+            0.5, 0.5, f"SVG Hitmap\n{svg_size/1024:.1f} KB",
+            transform=ax_hitmap_svg.transAxes, ha="center", va="center",
+            fontsize=12, bbox=dict(boxstyle="round", facecolor="#ffe0e0"),
+        )
+    ax_hitmap_svg.axis("off")
+
+    # === Panel 7: PNG vs Hitmap Diff ===
+    ax_diff = fig.add_subplot(gs[1, 2])
+    ax_diff.set_title("PNG vs Hitmap (Overlay)", fontweight="bold", fontsize=11)
+    if png_path.exists() and hitmap_path.exists():
+        png_arr = np.array(Image.open(png_path).convert("RGB"))
+        hitmap_arr = np.array(Image.open(hitmap_path).convert("RGB"))
+
+        if png_arr.shape == hitmap_arr.shape:
+            overlay = np.zeros_like(png_arr)
+            overlay[:, :, 0] = hitmap_arr[:, :, 0]
+            overlay[:, :, 2] = np.mean(png_arr, axis=2).astype(np.uint8)
+            overlay[:, :, 1] = 128
+            ax_diff.imshow(overlay)
+            ax_diff.set_xlabel("Red=Hitmap, Blue=PNG", fontsize=9)
+        else:
+            ax_diff.text(
+                0.5, 0.5, "Size mismatch!",
+                transform=ax_diff.transAxes, ha="center", va="center",
+                fontsize=14, color="red",
+            )
+    ax_diff.axis("off")
+
+    # === Panel 8: Alignment Validation ===
+    ax_valid = fig.add_subplot(gs[1, 3])
+    ax_valid.set_title("Alignment Check", fontweight="bold", fontsize=11)
+    ax_valid.axis("off")
+
+    validation_text = _generate_alignment_validation(png_path, hitmap_path)
+    color = "green" if all(
+        "✓" in t for t in validation_text if t.startswith("✓") or t.startswith("✗")
+    ) else "red"
+
+    ax_valid.text(
+        0.05, 0.95, "\n".join(validation_text),
+        transform=ax_valid.transAxes, fontsize=9, verticalalignment="top",
+        fontfamily="monospace",
+        bbox=dict(
+            boxstyle="round",
+            facecolor="#f0fff0" if color == "green" else "#fff0f0",
+            alpha=0.8,
+        ),
+    )
+
+    # Save overview
+    overview_path = dir_path / f"{basename}_overview.png"
+    with warnings.catch_warnings():
+        warnings.filterwarnings("ignore", message=".*tight_layout.*")
+        fig.savefig(overview_path, dpi=get_preview_dpi(), bbox_inches="tight", facecolor="white")
+    plt.close(fig)
+
+
+def _json_to_tree(
+    obj, prefix="", max_depth=4, depth=0, max_keys=6, max_lines=30
+) -> List[str]:
+    """Convert JSON to tree representation with depth control."""
+    lines = []
+    if depth >= max_depth:
+        return []
+
+    if isinstance(obj, dict):
+        items = list(obj.items())[:max_keys]
+        for i, (k, v) in enumerate(items):
+            is_last = i == len(items) - 1 and len(obj) <= max_keys
+            branch = "└─ " if is_last else "├─ "
+            next_prefix = prefix + ("   " if is_last else "│  ")
+
+            if isinstance(v, dict):
+                if depth < max_depth - 1 and v:
+                    lines.append(prefix + branch + f"{k}:")
+                    lines.extend(_json_to_tree(
+                        v, next_prefix, max_depth, depth + 1, max_keys, max_lines
+                    ))
+                else:
+                    lines.append(prefix + branch + f"{k}: {{{len(v)} keys}}")
+            elif isinstance(v, list):
+                lines.append(prefix + branch + f"{k}: [{len(v)} items]")
+            else:
+                val_str = str(v)
+                if len(val_str) > 25:
+                    val_str = val_str[:22] + "..."
+                lines.append(prefix + branch + f"{k}: {val_str}")
+
+        if len(obj) > max_keys:
+            lines.append(prefix + f"   ... +{len(obj) - max_keys} more")
+
+    return lines[:max_lines]
+
+
+def _generate_alignment_validation(png_path: Path, hitmap_path: Path) -> List[str]:
+    """Generate alignment validation text."""
+    from PIL import Image
+
+    validation_text = []
+
+    if png_path.exists() and hitmap_path.exists():
+        png_img = Image.open(png_path)
+        hitmap_img = Image.open(hitmap_path)
+
+        # Size check
+        size_match = png_img.size == hitmap_img.size
+        validation_text.append(
+            f"✓ Size match: {png_img.size}"
+            if size_match
+            else f"✗ Size mismatch: PNG={png_img.size}, Hitmap={hitmap_img.size}"
+        )
+
+        # Content bounds check
+        png_arr = np.array(png_img.convert("RGB"))
+        hitmap_arr = np.array(hitmap_img.convert("RGB"))
+
+        def find_bounds(arr):
+            white = np.array([255, 255, 255])
+            mask = np.any(np.abs(arr.astype(int) - white) > 20, axis=2)
+            rows = np.any(mask, axis=1)
+            cols = np.any(mask, axis=0)
+            if np.any(rows) and np.any(cols):
+                y_min, y_max = np.where(rows)[0][[0, -1]]
+                x_min, x_max = np.where(cols)[0][[0, -1]]
+                return (int(x_min), int(y_min), int(x_max), int(y_max))
+            return (0, 0, arr.shape[1], arr.shape[0])
+
+        png_bounds = find_bounds(png_arr)
+        hitmap_bounds = find_bounds(hitmap_arr)
+
+        bounds_match = png_bounds == hitmap_bounds
+        validation_text.append(
+            f"✓ Content aligned"
+            if bounds_match
+            else f"✗ Content offset: {hitmap_bounds[0]-png_bounds[0]}, {hitmap_bounds[1]-png_bounds[1]}"
+        )
+
+        validation_text.append("")
+        validation_text.append(f"PNG bounds: {png_bounds}")
+        validation_text.append(f"Hitmap bounds: {hitmap_bounds}")
+    else:
+        validation_text.append("Files not found")
+
+    return validation_text
+
+
+# EOF