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Appion/Leginon 3.7

open

13%

58 issues   (8 closed — 50 open)

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Bug

6/25
Feature

2/31
Support

0/1
Task

0/1
Related issues
Bug #13859: instrument loaded too late for autoscreen first preset settings and grid insertion Actions
Bug #13884: aperture does not always finish changing when aperture is selected between two values Actions
Bug #13893: can not set INSTRUMENTS_CFG_PATH to be used to overwrite default configuration of instruments.cfg Actions
Bug #14020: "source" does not work with Debian 11 default sh Actions
Bug #14032: auto square finders picks squares on the partial squares on the edge of mosaic image that has partial square stats happens to give good score or other threshold Actions
Bug #14040: TFS camera using advanced scripting can be not restarted after application is close and restarted. Actions
Bug #14043: referenced settings not export/imported Actions
Bug #14081: dose and align image in similar look can not find gain/dark correction images on K2/K3 Actions
Bug #14132: remoteserver attempts to create remote directory even if it does not have a remote.cfg set Actions
Bug #14133: correctorclient loads norm image array from file on Falcon EER sum image even though it does not use it Actions
Bug #14149: Focus step in focus sequence may get saved to focus sequence if user click "+" without inputting a name Actions
Bug #14195: Autoscreen fails to set data from old session because of missing C2ApertureSizeData in the old session Actions
Bug #14304: new targets on grid atlas can not go ahead of old ones that are not yet processed even if sorted to do so until the old ones are done Actions
Bug #14305: targets from simulated targets can not be sorted Actions
Bug #14340: targets not processed in active learning square targeting when mosaic scale is changed Actions
Bug #14349: mosaic tile adding thread does not lock autofinderlock well. Actions
Bug #14527: MosaicScoreTargetFinder default missing autofinder settings Actions
Bug #14559: numpy 1.20 deprecated numpy.bool data type Actions
Bug #15288: import_all.py failed on createViewerCommentTable when creating in InnoDB engine Actions
Bug #15973: Not updating all presets after importing from a different microscope prevents session from being imported in the future Actions
Bug #15974: rasterfinder error 'hole3' Actions
Bug #15993: falcon4 batch mode is faster than the camera cycling time Actions
Bug #16096: falcon3 frames name does not match database Actions
Bug #16176: infinite recursion on Beam_Tilt_Image Actions
Bug #16316: "Add random amount to acquisition" also adjusts the focus target Actions
Feature #13899: run autoRelauncher.py on the whole auto session set Actions
Feature #13968: Add option to use whole micrograph for ALS ice thickness calculation Actions
Feature #13969: sort collection of exposure samples by ice thickness Actions
Feature #13970: Add option to randomise targets within holes Actions
Feature #14065: show only clients connected to the local host in client selection combo box as default Actions
Feature #14092: Use fei image queuing on Falcon4 Actions
Feature #14113: ptolemy active learning implementation Actions
Feature #14140: pysetup.sh with appion Actions
Feature #14145: label a session for using autoscreen in webviewer and grid management services if present. Actions
Feature #14148: leginon version Actions
Feature #14157: skip further focus steps if it is good enough Actions
Feature #14158: disable auto normalization and then noramlize all at the end of preset setting to fei scopes Actions
Feature #14212: set defocus and stage z of successful focuser results and skip autofocusing if such operation works Actions
Feature #14348: limit number of images taken in a session Actions
Feature #14356: add energy filter offset control to presets Actions
Feature #14357: speed up ctf graphs and drift reports, make graph frame white Actions
Feature #14359: update tiltgroup_wrangler.py to work under cryoSparc 4 Actions
Feature #14363: script to continue autoscreen session if crashed during the run Actions
Feature #14378: Speed up download of CTF data with beam tilt Actions
Feature #14393: faster image-shift data collection Actions
Feature #14467: TFS Selectris support Actions
Feature #14487: Display ptolemy learning progress over time Actions
Feature #14509: tools to update target order through ptolemy active-learning score recalculation Actions
Feature #14773: Smart Leginon - simplify input to autoscreen.py Actions
Feature #15143: Leginon - increase number of autofill targets to 14 Actions
Feature #15146: Smart Leginon - add Jenks grouping and option to randomize Ptolemy scores, other features Actions
Feature #15514: Improve holefinder to fall back to center target Actions
Feature #15515: Add pause to transformmanager.py Actions
Feature #15719: Add ability to download image shifts as XML file Actions
Feature #16052: optionally hide "-all microscopes" dropdown Actions
Feature #16331: Add IceT adjustment for Cold FEG flashing Actions
Support #13855: current de.py is not compatible with server version1.0 Actions
Task #14751: Smart Leginon Autoscreen: please remove the broken squares from Autoscreen selection. Session m23may031l Actions