driftlessmap 1.1.0__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- driftlessmap/__init__.py +16 -0
- driftlessmap/__main__.py +5 -0
- driftlessmap/about.py +24 -0
- driftlessmap/allen_downloader.py +908 -0
- driftlessmap/app.py +8085 -0
- driftlessmap/atlas_downloader.py +370 -0
- driftlessmap/atlas_loader.py +526 -0
- driftlessmap/atlas_processor.py +784 -0
- driftlessmap/atlas_transform.py +111 -0
- driftlessmap/atlas_view.py +1435 -0
- driftlessmap/cell_detection.py +27 -0
- driftlessmap/coordinate_validation.py +19 -0
- driftlessmap/czi_reader.py +236 -0
- driftlessmap/data/WHS_atlas_labels.pkl +0 -0
- driftlessmap/data/allen_mice_atlas_labels.pkl +0 -0
- driftlessmap/data/atlas_labels.pkl +0 -0
- driftlessmap/data/query.csv +1328 -0
- driftlessmap/download_utils.py +85 -0
- driftlessmap/herbs.png +0 -0
- driftlessmap/icons/backward.svg +15 -0
- driftlessmap/icons/dot.svg +11 -0
- driftlessmap/icons/down-arrow.svg +10 -0
- driftlessmap/icons/fast_backward.svg +14 -0
- driftlessmap/icons/fast_forward.svg +14 -0
- driftlessmap/icons/forward.svg +14 -0
- driftlessmap/icons/layers/add.png +0 -0
- driftlessmap/icons/layers/ai.png +0 -0
- driftlessmap/icons/layers/eye_off.png +0 -0
- driftlessmap/icons/layers/eye_on.png +0 -0
- driftlessmap/icons/layers/eye_white.png +0 -0
- driftlessmap/icons/layers/hi.png +0 -0
- driftlessmap/icons/layers/trash.png +0 -0
- driftlessmap/icons/object.svg +22 -0
- driftlessmap/icons/sidebar/add.png +0 -0
- driftlessmap/icons/sidebar/atlascontrol.png +0 -0
- driftlessmap/icons/sidebar/atlascontrol.svg +32 -0
- driftlessmap/icons/sidebar/bnd.svg +14 -0
- driftlessmap/icons/sidebar/c_section.png +0 -0
- driftlessmap/icons/sidebar/c_section2.png +0 -0
- driftlessmap/icons/sidebar/cell.svg +24 -0
- driftlessmap/icons/sidebar/check.svg +9 -0
- driftlessmap/icons/sidebar/compare.svg +18 -0
- driftlessmap/icons/sidebar/contour.svg +14 -0
- driftlessmap/icons/sidebar/h_section.png +0 -0
- driftlessmap/icons/sidebar/info.svg +14 -0
- driftlessmap/icons/sidebar/layers.png +0 -0
- driftlessmap/icons/sidebar/layers.svg +23 -0
- driftlessmap/icons/sidebar/line.svg +10 -0
- driftlessmap/icons/sidebar/link.svg +18 -0
- driftlessmap/icons/sidebar/link_off.svg +18 -0
- driftlessmap/icons/sidebar/merge.svg +11 -0
- driftlessmap/icons/sidebar/object.svg +13 -0
- driftlessmap/icons/sidebar/probe.png +0 -0
- driftlessmap/icons/sidebar/probe.svg +23 -0
- driftlessmap/icons/sidebar/rotation_horizontal.svg +14 -0
- driftlessmap/icons/sidebar/rotation_vertical.svg +14 -0
- driftlessmap/icons/sidebar/s_section.png +0 -0
- driftlessmap/icons/sidebar/tool.png +0 -0
- driftlessmap/icons/sidebar/tool.svg +19 -0
- driftlessmap/icons/sidebar/trash.png +0 -0
- driftlessmap/icons/sidebar/tree_checked.svg +10 -0
- driftlessmap/icons/sidebar/treeview.png +0 -0
- driftlessmap/icons/sidebar/treeview.svg +10 -0
- driftlessmap/icons/sidebar/treeview2.png +0 -0
- driftlessmap/icons/sidebar/virus.svg +24 -0
- driftlessmap/icons/tdown.svg +16 -0
- driftlessmap/icons/toolbar/accept.svg +18 -0
- driftlessmap/icons/toolbar/accept2.svg +24 -0
- driftlessmap/icons/toolbar/aim.svg +44 -0
- driftlessmap/icons/toolbar/aim_not.svg +28 -0
- driftlessmap/icons/toolbar/anchor.svg +14 -0
- driftlessmap/icons/toolbar/anticlockwise_rotation.svg +12 -0
- driftlessmap/icons/toolbar/atlas_icon.png +0 -0
- driftlessmap/icons/toolbar/boundary_register.svg +18 -0
- driftlessmap/icons/toolbar/cancel.svg +32 -0
- driftlessmap/icons/toolbar/cell_select.svg +22 -0
- driftlessmap/icons/toolbar/cell_select_not.svg +12 -0
- driftlessmap/icons/toolbar/check.svg +9 -0
- driftlessmap/icons/toolbar/clockwise_rotation.svg +11 -0
- driftlessmap/icons/toolbar/closed_path.svg +16 -0
- driftlessmap/icons/toolbar/closed_path2 copy.svg +19 -0
- driftlessmap/icons/toolbar/closed_path2.svg +20 -0
- driftlessmap/icons/toolbar/eraser.png +0 -0
- driftlessmap/icons/toolbar/eraser.svg +19 -0
- driftlessmap/icons/toolbar/eye.svg +17 -0
- driftlessmap/icons/toolbar/eye_closed.svg +19 -0
- driftlessmap/icons/toolbar/fill.svg +12 -0
- driftlessmap/icons/toolbar/gps.svg +15 -0
- driftlessmap/icons/toolbar/h_flip.png +0 -0
- driftlessmap/icons/toolbar/handle.png +0 -0
- driftlessmap/icons/toolbar/image_icon.png +0 -0
- driftlessmap/icons/toolbar/image_icon.svg +25 -0
- driftlessmap/icons/toolbar/info.svg +14 -0
- driftlessmap/icons/toolbar/inpart.png +0 -0
- driftlessmap/icons/toolbar/inpart.svg +17 -0
- driftlessmap/icons/toolbar/lasso.png +0 -0
- driftlessmap/icons/toolbar/lasso.svg +14 -0
- driftlessmap/icons/toolbar/left90.png +0 -0
- driftlessmap/icons/toolbar/line.svg +10 -0
- driftlessmap/icons/toolbar/line_sites.svg +11 -0
- driftlessmap/icons/toolbar/linear_silicon.png +0 -0
- driftlessmap/icons/toolbar/linear_silicon.svg +88 -0
- driftlessmap/icons/toolbar/list.svg +14 -0
- driftlessmap/icons/toolbar/location.svg +14 -0
- driftlessmap/icons/toolbar/magic-wand.svg +16 -0
- driftlessmap/icons/toolbar/magic_white.png +0 -0
- driftlessmap/icons/toolbar/mask.svg +10 -0
- driftlessmap/icons/toolbar/match.svg +20 -0
- driftlessmap/icons/toolbar/matchbnd.svg +18 -0
- driftlessmap/icons/toolbar/matching.svg +36 -0
- driftlessmap/icons/toolbar/merge.svg +11 -0
- driftlessmap/icons/toolbar/move_down.png +0 -0
- driftlessmap/icons/toolbar/move_left.png +0 -0
- driftlessmap/icons/toolbar/move_right.png +0 -0
- driftlessmap/icons/toolbar/move_up.png +0 -0
- driftlessmap/icons/toolbar/moving.png +0 -0
- driftlessmap/icons/toolbar/multi-probe.svg +119 -0
- driftlessmap/icons/toolbar/multi_pencil.svg +23 -0
- driftlessmap/icons/toolbar/multi_probe.png +0 -0
- driftlessmap/icons/toolbar/object.svg +13 -0
- driftlessmap/icons/toolbar/open_path.svg +22 -0
- driftlessmap/icons/toolbar/outpart.png +0 -0
- driftlessmap/icons/toolbar/outpart.svg +26 -0
- driftlessmap/icons/toolbar/pencil.png +0 -0
- driftlessmap/icons/toolbar/pencil.svg +19 -0
- driftlessmap/icons/toolbar/plasso.png +0 -0
- driftlessmap/icons/toolbar/probe.svg +19 -0
- driftlessmap/icons/toolbar/radar.svg +32 -0
- driftlessmap/icons/toolbar/rotation.svg +45 -0
- driftlessmap/icons/toolbar/rotation_clockwise.svg +18 -0
- driftlessmap/icons/toolbar/rotation_counter_clockwise.svg +18 -0
- driftlessmap/icons/toolbar/ruler.svg +27 -0
- driftlessmap/icons/toolbar/separate_sites.svg +13 -0
- driftlessmap/icons/toolbar/single_pencil.svg +16 -0
- driftlessmap/icons/toolbar/toa.svg +11 -0
- driftlessmap/icons/toolbar/toa_delete.svg +36 -0
- driftlessmap/icons/toolbar/toaa.svg +11 -0
- driftlessmap/icons/toolbar/toh.svg +11 -0
- driftlessmap/icons/toolbar/toh_delete.svg +36 -0
- driftlessmap/icons/toolbar/tohh.svg +11 -0
- driftlessmap/icons/toolbar/trans.png +0 -0
- driftlessmap/icons/toolbar/trans.svg +16 -0
- driftlessmap/icons/toolbar/triangulation.svg +10 -0
- driftlessmap/icons/toolbar/two_window.png +0 -0
- driftlessmap/icons/toolbar/unmerge.svg +16 -0
- driftlessmap/icons/toolbar/v_flip.png +0 -0
- driftlessmap/icons/toolbar/virus.svg +24 -0
- driftlessmap/icons/toolbar/virus_register.svg +31 -0
- driftlessmap/icons/toolbar/vis2d.svg +29 -0
- driftlessmap/icons/toolbar/window2.png +0 -0
- driftlessmap/icons/toolbar/window3.png +0 -0
- driftlessmap/icons/toolbar/window4.png +0 -0
- driftlessmap/icons/tree_close.svg +14 -0
- driftlessmap/icons/tree_open.svg +14 -0
- driftlessmap/icons/up-arrow.svg +10 -0
- driftlessmap/image_curves.py +579 -0
- driftlessmap/image_reader.py +186 -0
- driftlessmap/image_stacks.py +359 -0
- driftlessmap/image_view.py +646 -0
- driftlessmap/images_reader.py +5 -0
- driftlessmap/label_tree.py +278 -0
- driftlessmap/layer_validation.py +25 -0
- driftlessmap/layers_control.py +554 -0
- driftlessmap/main_window.ui +883 -0
- driftlessmap/movable_points.py +254 -0
- driftlessmap/obj_items.py +122 -0
- driftlessmap/object_control.py +1762 -0
- driftlessmap/persistence.py +376 -0
- driftlessmap/popup_message.py +16 -0
- driftlessmap/probe_csv.py +319 -0
- driftlessmap/probe_reconstruction.py +409 -0
- driftlessmap/probe_utiles.py +1442 -0
- driftlessmap/qss/atlas_view_group_box.qss +15 -0
- driftlessmap/qss/box_label.qss +7 -0
- driftlessmap/qss/channel_selector.qss +19 -0
- driftlessmap/qss/color_combo.qss +121 -0
- driftlessmap/qss/decor_label.qss +9 -0
- driftlessmap/qss/dialogs.qss +11 -0
- driftlessmap/qss/hidden_line_edit.qss +5 -0
- driftlessmap/qss/label_tree.qss +123 -0
- driftlessmap/qss/main_window.qss +243 -0
- driftlessmap/qss/menu_bar.qss +42 -0
- driftlessmap/qss/multi_handle_slider.qss +14 -0
- driftlessmap/qss/obj_ctrl_bottom_button.qss +29 -0
- driftlessmap/qss/object_text_button.qss +19 -0
- driftlessmap/qss/page_control.qss +36 -0
- driftlessmap/qss/rotation_button.qss +9 -0
- driftlessmap/qss/side_bar.qss +23 -0
- driftlessmap/qss/spinbox.qss +106 -0
- driftlessmap/qss/tabs.qss +211 -0
- driftlessmap/qss/tool_bar.qss +77 -0
- driftlessmap/resources.py +34 -0
- driftlessmap/roi_analysis.py +375 -0
- driftlessmap/run_driftlessmap.py +4 -0
- driftlessmap/slice_stacks.py +268 -0
- driftlessmap/slice_validation.py +20 -0
- driftlessmap/toolbox.py +569 -0
- driftlessmap/triangulation.py +517 -0
- driftlessmap/triangulation_points.py +108 -0
- driftlessmap/user_settings.py +92 -0
- driftlessmap/uuuuuu.py +1168 -0
- driftlessmap/version.py +3 -0
- driftlessmap/widgets_utils.py +140 -0
- driftlessmap/wtiles.py +715 -0
- driftlessmap-1.1.0.dist-info/METADATA +186 -0
- driftlessmap-1.1.0.dist-info/RECORD +210 -0
- driftlessmap-1.1.0.dist-info/WHEEL +5 -0
- driftlessmap-1.1.0.dist-info/entry_points.txt +2 -0
- driftlessmap-1.1.0.dist-info/licenses/LICENSE.txt +23 -0
- driftlessmap-1.1.0.dist-info/top_level.txt +1 -0
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import json
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import os
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from pathlib import Path
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import sys
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import tempfile
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SETTINGS_SCHEMA_VERSION = 1
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def _platform_config_root():
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if sys.platform == "win32":
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return Path(
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os.environ.get("APPDATA", Path.home() / "AppData" / "Roaming")
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)
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if sys.platform == "darwin":
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return Path.home() / "Library" / "Application Support"
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return Path(os.environ.get("XDG_CONFIG_HOME", Path.home() / ".config"))
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def user_config_directory():
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override = os.environ.get("DRIFTLESSMAP_CONFIG_DIR")
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if override:
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return Path(override).expanduser()
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legacy_override = os.environ.get("HERBS_CONFIG_DIR")
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if legacy_override:
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return Path(legacy_override).expanduser()
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return _platform_config_root() / "DriftlessMap"
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def settings_path():
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return user_config_directory() / "settings.json"
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def _legacy_settings_path():
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if os.environ.get("DRIFTLESSMAP_CONFIG_DIR") or os.environ.get(
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"HERBS_CONFIG_DIR"
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):
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return None
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return _platform_config_root() / "HERBS" / "settings.json"
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def load_last_atlas_path():
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current_path = settings_path()
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candidates = [current_path]
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legacy_path = _legacy_settings_path()
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if not current_path.exists() and legacy_path is not None:
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candidates.append(legacy_path)
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settings = None
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for candidate in candidates:
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try:
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with candidate.open(encoding="utf-8") as handle:
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settings = json.load(handle)
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break
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except (OSError, ValueError, TypeError):
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continue
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if settings is None:
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return None
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if settings.get("schema_version") != SETTINGS_SCHEMA_VERSION:
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return None
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atlas_path = settings.get("last_atlas_path")
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if not isinstance(atlas_path, str) or not atlas_path:
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return None
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return atlas_path
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def save_last_atlas_path(atlas_path):
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atlas_path = os.fspath(atlas_path)
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if not atlas_path:
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raise ValueError("Atlas path must not be empty.")
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destination = settings_path()
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destination.parent.mkdir(parents=True, exist_ok=True)
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settings = {
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"schema_version": SETTINGS_SCHEMA_VERSION,
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"last_atlas_path": atlas_path,
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}
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temporary_path = None
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try:
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with tempfile.NamedTemporaryFile(
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mode="w", encoding="utf-8", dir=destination.parent,
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prefix=".settings-", suffix=".tmp", delete=False
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) as handle:
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temporary_path = Path(handle.name)
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json.dump(settings, handle, indent=2)
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handle.flush()
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os.fsync(handle.fileno())
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os.replace(temporary_path, destination)
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finally:
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if temporary_path is not None and temporary_path.exists():
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temporary_path.unlink()
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