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v0.9.9

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@rafalkowalewski1 rafalkowalewski1 released this 10 Mar 12:14
· 340 commits to master since this release
v0.9.9
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Picasso 0.9.9 is here

Changelog

Small improvements:

  • Added a function picasso.lib.get_save_filename_ext_dialog that can also check for the existence of the files with other extenstions (for example, if the user tries to save a .yaml file with the same name as an existing .hdf5 file, it will ask if the user wants to overwrite the .hdf5 file). This is implemented in all GUI modules when saving files.
  • PyImarisWriter is included in the one-click-installer again (Windows only)
  • Localize GUI allows the user to automatically undrift localizations
  • Localize Parameters dialog displays a message if the z calibration path in the config file could not be found
  • MLE fitting saves CRLB uncertainties of fitted parameters: photons, background, sx and sy
  • picasso.localize.fit default method changed to sigmaxy (anisotropic sigma fitting)
  • Render export localizations supports exporting all channels sequentially
  • Changed default max. frames in linking (dark times calculation) to 3 (previously 1) (both GUI and picasso.postprocess.link)
  • Added number of binding events to Render's "Show info" dialog
  • Render 3D window always brings the selected region's mean z position to 0 for easier visualization
  • Render 3D: added buttons for xy, xz and yz projections
  • Added DOIs related to G5M and axial loc. precision
  • Removed mean frame filtering for G5M filtering/postprocessing
  • Added tool tips to G5M dialog
  • G5M automatically saves the check on relative sigma
  • Updated Picasso Average documentation
  • Changed default parameters in Simulate to reflect a typical DNA origami measurement
  • SPINNA GUI allows for user-defined max y-axis value in the NND plot

Bug fixes:

  • Fixed Picasso Server launching in one-click-installers
  • Fixed 3D MLE fitting and cleaned the docstrings for better readability (picasso.gaussmle)
  • Fixed how Picasso: Simulates splits photons across binding events
  • Fixed G5M 3D CI test
  • Fixed Render 3D scale bar

Notes

⚠️ If installed in Program Files, Render and Localize may not be available for non-administrator users. Therefore, we recommend installing Picasso outside of Program Files. The current default location is C:\Picasso.
⚠️ When using Windows installer, camera config file needs to be moved to C:\Picasso\_internal\picasso. Previously under C:\Picasso\picasso.
⚠️ Windows Safety features and Windows Defender may ask multiple times for permission during the installation and download.
⚠️ If your macOS installer does not open due to potential malware, click on the "?" button and follow the instructions to open Picasso anyway. This needs to be repeated for both the main "picasso" app as well as the individual modules.

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