File index cache, cross-platform folder browser, and persistence fixes#4
Merged
anderstorstensson merged 13 commits intomainfrom Feb 4, 2026
Merged
File index cache, cross-platform folder browser, and persistence fixes#4anderstorstensson merged 13 commits intomainfrom
anderstorstensson merged 13 commits intomainfrom
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Implement disk-based file index cache to avoid expensive recursive directory scans on startup. The cache stores ROI, classification, and annotation file locations in a JSON file alongside settings. Add sync button and cache age indicator to the sidebar. Support headless cache updates via rescan_file_index() for cron jobs. Replace platform-specific folder dialogs (tcltk/utils::choose.dir) with shinyFiles web-based directory browser for cross-platform support. Additional improvements: - Add adc_folder parameter to save_sample_annotations() for non-standard folder structures - Handle empty (0-byte) ADC files gracefully in read_roi_dimensions() - Invalidate cache automatically when folder paths change in settings - Update vignettes, FAQ, NEWS, README, and pkgdown config for new features
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…oss reinstalls Make shinyDirChoose use dynamic roots via a custom dynamic_roots S3 class that works around shinyFiles 0.9.3 not handling function roots in sendDirectoryData. The browse dialog now opens at the directory typed in the corresponding text field instead of always starting at the working directory. Save class2use file to user config directory (~/.config/R/ClassiPyR/) instead of the package install directory so it survives reinstalls.
Measure tool: position SVG and label inside .gallery-drag-area with
position:absolute so the line scrolls with images instead of drifting.
Use z-index below the sticky toolbar so the line tucks behind it.
Skip image selection toggle while in measure mode to prevent re-renders
from removing the measurement overlay.
Vignettes: correct config directory paths to match
tools::R_user_dir("ClassiPyR", "config"), fix ROI folder structure
docs to reflect that any layout works (recursive scan), document
reset_settings behavior with class list, add initial "No sample loaded"
state to mode indicator docs, and misc corrections.
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Summary
Changes
New features
~/.config/R/ClassiPyR/file_index.jsonfor instant startup. Includes sync button, cache age indicator, auto-sync setting, and a headlessrescan_file_index()function for cron jobsdynamic_rootsS3 class to work around a shinyFiles 0.9.3 bug, so the dialog opens at the path currently typed in the text fieldBug fixes
class2use_saved.matis now stored in~/.config/R/ClassiPyR/instead of the package install directory, so it survives reinstallsOther
Test plan
devtools::install()reinstall