ZEN 2012 SP5 black edition Hotfix 12

Transcription

1 Information about the software ZEN 2012 SP5 black edition Hotfix 12 Software name: ZEN 2012 Service Pack 5 black edition Hotfix 12 Software version: The software version in ZEN Help About changes to Release date: April 2018 Compatible systems: Important notes: Systems running on ZEN 2012 black edition. The software version in ZEN Help About must be 14.0.x.201 Please contact your local service engineer prior to updating a customized system (SCS or INDIMO system). Please contact your local service engineer prior to updating ELYRA systems with newly installed Andor SDK require a database adjustment. The Hotfix may not be installed on systems running on a different ZEN version than specified above. Installation instructions: Run the installation file using a Windows user account with administrator privileges. The ZEN software must not be running during the installation. New Features introduced by Feature Pack 1, which was included in a previous Hotfix: Experiment Designer Added the option to configure an Interval block. This block will delay the acquisition of the subsequent block for a specified time, while taking into account the time required for the previous block. (#159068) Experiment Designer The experiment blocks will show an indication of the time required for their respective acquisition. (#159068) Issues addressed by this Hotfix: General - Solved an issue, where Auto Z Brightness Correction for Z-Stack Experiments using NLO Laser shows an increase of laser intensity. (#160415) General - The "Test Autofocus" button will no longer affect the scan speed of Z-Stack experiments. (#164410) General - For multitrack experiments with selected mode "Frame Fast", when changing Optovar positions, now changes for all tracks automatically. (#164520) 1

2 General - The calculation of the remaining experiment time for multi-position experiments was improved. (#169757) General - Solved an issue for Z-Stack Experiments with Auto Z Brightness Correction, where the correction was done within individual images. (#171031) Experiment Designer - "Bleach in different Z" check box now works correctly in multi-block experiments. (#169270) Airyscan - Solved an issue where ZEN has stopped working in a bleaching experiment. (#162593) Airyscan - Fixed stability issues when changing the sampling regime or Frame Size while the Airyscan view is active. (#174458) Airyscan Fast - Solved an issue where some images were under certain circumstances not saved completely. (#162367) ELYRA - PALM datasets processed before ZEN 2.3 SP1 HF4 will be opened correctly. (#151518) ELYRA - Model-based drift correction now recognizes markers in the image in adaptive mode for automatic range detection. (#157826) Piezo Z-Drives - Improved precision of the step size calculation. (#154974) Piezo WSB Actively stopping Experiments by clicking the stop button will no longer cause randomly occurring Z-offsets. (#162640) Piezo WSB Corrected a significant offset in the Z-Stack range used by the piezo compared to the internal focus drive. (#162971) Piezo WSB Fixed an issue where Z-Stacks of one tile are not in the correct order. (#164304) Piezo WSB Corrected a significant offset in the Z-Stack range used by the piezo compared to the internal focus drive when using Frame or Frame Fast multi-tracks. Issues addressed by previous Hotfixes and included in this Hotfix: General - External Airyscan processing of Time Series will now be initiated without a delay. (#159782) General - The interval of time series is correctly maintained when tracks are added or removed. (#157567) General - On systems with switchable Optovar, the Optovar will now be correctly kept stable during multitrack acquisition with Frame Fast track switching. (#154772) Airyscan - Solved an issue with Airyscan processing of images, which contain T-PMT channels. (#158222) Airyscan - Improved stability of Airyscan batch processing with large number of files. (#160213) Airyscan Fast - Fixed an issue, which could cause equally spaced black lines in the image under certain sampling conditions. (#154302) Airyscan Fast - Fixed the problem that Bleaching ROIs could eventually be disappearing when the experiment was cancelled by the user. (#154896) Experiment Designer - Duplicating Experiment Blocks does not alter the activation status of inactive tracks any longer. (#154545) Ortho Viewer - The controls to move graphical elements based on pixels have been removed. (#153207) 2

3 ELYRA - Solved an issue with the Laser initialization, which could cause the Error message "Laser On Error" and the Lasers would appear inactive in ZEN. (#155677) LSM No misleading warning regarding a disabled Scanner Online Calibration will be shown when upgrading to the latest Service Pack version. (#149369) LSM For legacy reasons, NDDs in the transmitted light path of upright stands are now available as T-PMTs for confocal acquisition. (#156127) Configuration Tool - Added Filter Set 91 HE LED ( ), Emission Filter BP BP ( ), Objective Plan Apo 20x 0.8 ( ). (#154618) Configuration Tool - User defined NDD emission filters can now still be modified afterwards. (#150793) General - When a Time Series and Z-Stack acquisition is combined with data streaming and online processing, there will be no short pause after the first slice of the Z-Stack. (#154964) Experiment Designer - Solved a performance issue, which caused a slowly increasing delay at the start of each acquisition block when data streaming is used. (#154883) Experiment Designer - Solved a performance issue in Z-Stack acquisition when data streaming is used. (#154884) General - Fixed an issue introduced with Hotfix 7, which caused an error when using the option "Record excitation intensities in time-series for reuse". (#157704) General - When a combined Tiles and Z-Stack acquisition with data streaming is actively cancelled by the user, no error message will be displayed. (#154851) General - Preventing the acquisition from slowing down when Airyscan Fast acquisition of Z- Stacks with two or more tracks is combined with Auto-Z-Brightness Correction. (#154835) General - When an experiment is actively stopped by the user with Finish Current Step, the last time point will always be added to the online processing queue file. (#154957) General - When time series are acquired using streaming and the dataset is processed already during the acquisition, the time stamp information the resulting image will be now be properly maintained. (#154647) General - Preventing SW issues with possible loss of image data if online stitching is combined with data streaming. (#154842) General - When time series are acquired using streaming and the dataset is processed already during the acquisition, the time stamp information the resulting image will be now be properly maintained. (#151230) General - When data streaming is used with online processing, the queue file will be generated after the first time point, independent from the track switching mode. (#154885) General - Improved performance and stability when working with very large Z-Stacks and Auto-Z- Brightness Correction. (#154891) Airyscan - Solved an issue with external processing of streamed Airyscan Fast datasets, which on certain systems caused processing artifacts. (#152882) General - After acquisition of overview scans the initially configured speed will be restored. (#145752) General - When Experiment Designer is used in combination with streaming, metadata information e.g. the position of the individual tiles or the time information of event markers is maintained. (#146095) 3

4 General - If time series are acquired using streaming and the dataset is processed already during the acquisition, the time stamp information the resulting image will be now be properly maintained. (#151230) General - Inside the Ortho viewer, the flickering of the drop-down element on the graphics tab was fixed. (#146026) General - Improvements in handling the Crop rectangle. (#160193) General - When performing a reuse, ROIs defined in "Regions" maintain their relative position and size in the image. (#159141) General - Fixed an issue where Auto Z Brightness Correction for Z-Stack experiments was only applied when "Enable Test" was selected. (#159544) General In counting mode, the handling of data for frames with less than 128 has been corrected. (#162493) General Removed the option on Axio Examiner to lower the objective when moving the stage in Tile Experiments. (#156329) Airyscan - If Airyscan or Airyscan Fast tracks are active, the pinhole is no longer automatically adjusted to 1 AU when the objective is changed. (#149123) Airyscan - Fixed a performance issue in Airyscan Fast acquisition. When multitrack acquisition of time series with frame-wise averaging is performed, the acquisition will now maintain a constantly high speed. (#139868) Airyscan - When Airyscan Fast is used to acquire Tile scan images after an overview image has been generated with a different objective or certain acquisition settings, the image is now displayed correctly. (#151057) Airyscan - For Airyscan Fast systems on Axio Examiner or an Axio Observer (rear-port) stands, the option "exchange XY" was enabled by default with every start of ZEN. As a consequence of this option, the image orientation in the ocular matches the image display in the software. However, the scan area representation of non-symmetrical scan fields is flipped on Airyscan Fast acquisition on these systems, including the scan area offsets and non-symmetrical tile scans. By deactivating the option "exchange XY" the issues in the scan area representation and in the tiles acquisition can be avoided. This Hotfix changes the behavior of the "exchange XY" checkbox, so that the setting will be maintained when ZEN is restarted. (#150894) Airyscan - multitrack Live acquisition will maintain its speed. (#156321) Airyscan - Improved robustness in multitrack experiments after switching an Airyscan track to LSM and then switching to the Airyscan viewer. ELYRA - Fixed an issue which prevented 3D PALM datasets to be rendered for the entire stack height. (#135385) ELYRA - Improved the performance of SIM acquisition, which was slower in this Service Pack version compared to previous ZEN releases. (#149379) ELYRA - On systems with MiCo interface HS (not on systems with real-time PC) long exposure times of >400ms can now be used for multitrack SIM acquisitions. (#148790) ELYRA - Fixed an issue where the time series acquisition occasionally stopped with PALM sequential mode and trigger mode internal. (#160601) ELYRA - In SIM billing (at 405 nm, sometimes at 488 nm) levels no longer appear black. ELYRA - Multitrack laser WF experiments will no longer show a delay in dependence on the laser power. (#152508) 4

5 ELYRA - Resolved problems with Z-Stack experiments in combination with WSB500 and the Andor camera's new Andor SDK. (#162273) FCS - Measurement data files can now be overwritten, if the user modifies the dataset, e.g. by adding additional measurements. (#150246) Airyscan - Fixed an issue which caused a different processing strength on multi-position datasets in comparison to processing the positions individually. (#148756) Airyscan - When an Airyscan Fast track is activated in the channels tool window, the pinhole diameter setting of other tracks will be unchanged. (#141815) Airyscan - Overview images from tile scans acquired with Airyscan Fast are now displayed correctly and not spatially separated. (#145753) Airyscan - Solved an issue that could in rare situations cause an exception in the Airyscan processing function. (#141482) Piezo WSB In multi-position experiments the focus position is now correctly set when moving between the positions. (#135229) ELYRA - Solved an issue with processing of 3D time series datasets, which could cause the results to become inconsistent between the different time points. (#135136) ELYRA - Fixed a problem with the multi-track acquisition of SIM images when Frame-fast switching was used in combination with z-stacks and averaging. (#142929) ELYRA - Solved an update problem of the histogram during PALM acquisition. (#146030) ELYRA - The metadata regarding the camera zoom factor were misleading and therefore removed from the info view. (#132894) Analysis - The apparent molecular brightness B is now scaled according to the unit photons/pixel in compliance with literature instead of khz. For immobile structures B will now equal to 1. (#141626) Cameras - When multitrack wide-field images are reused, the exposure times are now correctly set and the will also not be restricted any more. (#146039) General - Solved an issue with the pinhole size calculation for long wavelengths. (#139778) General - The pinhole size for Airyscan CO mode tracks will not be changed any more, when the track activation is changed. (#139595) Airyscan - Solved an issue that could cause ZEN to freeze when Airyscan acquisition was performed with a horizontally oriented rectangle shaped region and with the option Fit Frame Size to Bounding Box. (#140758) Piezo WSB Improved system stability during long experiments. (#140713) Piezo WSB Solved an issue, which caused the internal focus drive to sporadically move to the wrong position, when the WSB 500 is configured in the database, but not actively used in the experiment. (#139826) Piezo WSB The behavior for fast acquisition (> Speed 13) of XT scans was improved. (#132679) LSM More than one dye spectrum can be displayed in the Imaging Setup for Lambda mode acquisition. (#131747) Image Processing - Changed the calculation of the Colocalization Manders value to match the corresponding calculation in ZEN blue edition. Image background is not considered any more. (#140072) 5

6 Image Processing - Fixed an issue with the processing of Airyscan Fast images that caused to strong filter settings. (#136734) Export - Fixed an issue with the export function for Lambda Z-Stacks and Lambda Time Series. (#135230) Reuse - When Images are reused that were acquired using the Laser WF mode, now the correct camera will be chosen. (#135352) Airyscan - The SBS position is maintained when activating Airyscan tracks (#140387) General - Improved the speed for saving images which contain markers, e.g. from autofocus events (#134109) General - Live Mode is no longer altering scanning speed for subsequent images, which could happen in certain situations (#131719) General - Added the option to temporarily disable streaming for opening files for systems with ZEN 2011, ZEN 2012 and ZEN 2.1 (#135357) Airyscan - The SBS position is maintained when activating Airyscan Fast tracks (#135339) Airyscan - The pinhole diameter for multitrack Airyscan experiments is now always determined by the longest excitation wavelength (#134666) FCS - Fixed the filter wheel position for using BiG or NDD detectors (#133328) FCS - Solved an issue caused by HF10, which prevented saving of FCS data. (#172416) Lambda Scan - The digital offset is now correctly set when re-using images (#134681) Shuttle and Find - Re-enabled the "select holder" dialog and the " " button (#134818) Configuration Tool - Corrected stage movement directionality on systems with ELYRA and LSM for the WSB XY CAN piezo stage (#133621) Configuration Tool - Added filter set FS 90 HE for Colibri light source (#136766) Configuration Tool - Solved a problem with CAN communication to NDD2 (#134608) Configuration Tool - Added Objective LD LCI Plan-Apochromat 40x/1.2 Imm Corr DIC M (#163921) Configuration Tool - Fixed an issue where after exchanging an XY piezo stage with a WSB CAN controller, the tiles in the y direction were not identical. (#166221)a 6