Notes for software installation ZEN 2012 SP5 (black edition) Version: Release Date: January Associated Programs and Tools

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1 Ntes fr sftware installatin ZEN 2012 SP5 (black editin) Versin: Release Date: January 2017 Assciated Prgrams and Tls SMT Cnfiguratin Tl CanCheck CZCanSrv.exe ZEN 2.1 SP1 (blue editin) MTB Test MTB Cnfiguratin Tl Imprtant Ntes This Service Pack can be installed by the lcal system administratr and des nt require installatin by a ZEISS service technician. The installatin rutine requires cmputer administratr privileges. Befre updating a custmized system (SCS r INDIMO), please cntact yur lcal service engineer. Befre installing this sftware, it is required t install the Windws patches KB and KB Withut these patches, the ZEN installatin will terminate with an errr message. Installatin f the patch can be started frm the main menu f the ZEN setup tl. Scanner calibratin is mandatry when upgrading existing LSM 710, LSM 780 r LSM 7 MP (single scan head) systems with this Service Pack. This can be dne with the nrmal SMT task fr scanner calibratin. The calibratin is nt required when the systems have befre been running with ZEN 2012 SP4 / ZEN 2011 SP6, as this already required the recalibratin. Nte that a calibratin bjective is required t perfrm the calibratin. LSM 880 and LSM 700 systems d nt require a recalibratin. When installing this sftware, previus versins will be autmatically uninstalled. Please refer t the manual fr the dcumentatin f knwn limitatins. In additin there is a list f knwn issues at the end f this dcument.

2 Hardware requirements Hst Cmputers supprted Fujitsu P900 Fujitsu P920 HP Z800 HP Z820 HP Z840 HP Z240 Systems supprted LSM 880 LSM 880 with Airyscan / Elyra / NLO Elyra P.1 / S.1 / PS.1 LSM 700 LSM 710 and LSM 780 LSM 710/780 with Airyscan / Elyra / NLO LSM 7 MP (single scan head) CnfCr 3 Systems nt supprted Lightsheet Z.1 LSM 800 LSM 7 LIVE LSM 7 DUO LSM 7 Series with NDD.2 LSM 7 MP with tw scan heads LSM 5 Series Sftware requirements License fr ZEN 2012 in cnjunctin with the systems listed abve. Fr ZEN 2.3 licenses, please use the Service Pack fr the respective ZEN versin r DVD 71. Windws 7 SP1, 64bit Windws 10 LTSB (Build 10240), 64bit Dwngrades Please cntact yur ZEISS representative fr the unlikely need f a dwngrade t the previus ZEN versin. In rder t perfrm a dwngrade t the previusly installed ZEN versin, a cpy f the riginal database is required.

3 Additinal infrmatin n supprted hardware Micrscpes supprted Axi Observer 7, Axi Observer.Z1, Axi Examiner.Z1, Axi Imager.Z2, Axi Imager.M2 Accessries supprted RT-PC 2014, RT-PC 2013, RT-PC 2010, MiC IF-HS interface, MiC IF interface, LVDS Interface PCI Express Card54 Z-Piez devices ( ; ; ) Mtrized stages ( ; ; ; ; ; ) Autcrr bjectives ( ; ; ; ) Definite Fcus ( ) Definite Fcus 2 ( ) Wide-field illuminatin: HXP 120; X-Cite 120; HAL; HBO Incubatin: TempMdule S1 ( ) CO2 Mdule S1 ( ) Heating Unit XL S1 ( ) BiG; BiG.2; NDD; GaAsP NDD 2channels; NDD.2 Cameras AxiCam MRm / MRc Rev.3 FireWire ( ; ) AxiCam HRc / HRm Rev.3 FireWire ( ) Pc.edge 5.5; pc.edge 4.2 ( ) Andr ixn 897 AxiCams 503 and 506 are supprted by the c-installed ZEN 2.1 SP1 (blue editin) Multiphtn equipment NLO lasers frm Cherent: Chamelen (all types); cmpact OPO; OPO MPX NLO lasers frm Spectra Physics: MaiTai (all types) Mtrized Periscpe

4 New functins in ZEN 2012 SP2 (black editin) This sftware des nt supprt any versin f MultiTime macr; Experiment Designer replaces the MultiTime macr Airyscan data acquisitin and prcessing Number & Brightness Analysis Filters tl (Maintain tab) Setting f spectral detectin bands via editing field Calculatin f slice thickness fr multiphtn excitatin with NDDs Cntrl f HXP 120 Cntrl f Autcrr bjectives New functins in ZEN 2012 SP4 (black editin) 3Dxl Viewer available in c-installed ZEN blue Definite Fcus 2 supprt New functins in ZEN 2.1 SP1 (blue editin) The 3Dxl viewer replaces in ZEN (blue editin) the 3D VisArt viewer Airyscan Prcessing with channel-specific parameters New functins in ZEN 2012 SP5 (black editin) Supprt fr LSM 700 Supprt fr Windws 10 LTSB

5 Cntent f the DVD ZEN 2012 SP5 (black editin) ZEN 2.1 SP1 (blue editin) MTB 2011x MTB Cnfiguratin Tl Mic-IF-HS driver Mic-IF driver (Windws 10) Mic-IF driver (Windws 7) Patch fr Windws (KB ) Patch fr Windws (KB ) System Maintenance Tl Cnfiguratin Tl CanCheck CanServer MDS AOTF driver Fast Acquisitin BMC IO Interface driver Aladdin Dngle Installatin 6.63 Prduct-DVD Installatin rutine License dcumentatin (PDF) Operatin manual (DVD) Installatin dialg Camera and ther drivers AxiCam AxiCam NG 1.42 AxiCam IC Universal Package 2.1 AxiCam 105 c AxiCam ERc 5s PvCam DCam API Juni 2014 Andr SDK / ( special versin fr Elyra systems with Windws 7 r Windws 10 LTSB) PCO ( special versin fr Elyra systems with Windws 7 r Windws 10 LTSB) Silicn Sftware Runtime Setup ( special versin fr Elyra systems with Windws 7 r Windws 10 LTSB) QImaging MIL ZEN brwser 2.0 Dcumentatin with nline help, Hw-t guides and installatin instructins Safety instructins and readme Sample images fr ZEN (black editin)

6 Knwn Bugs Aut Z Brightness Crrectin with Z-Piez and 405 Laser wrks nt as efficient as with ther wavelengths. At laser intensities belw 5%, the brightness crrectin is limited by an additinal attenuatin mechanism. Using mre than 5% laser pwer results in crrect brightness crrectin. (#113287) When images created in ZEN blue are prcessed in ZEN black, sme metadata may be lst. This affects mainly multi-blck images (e.g. scenes, tiles etc.). Mst prcessing tls wrk crrectly. ZEN might nt finish the experiment acquisitin crrectly in rare cases, when the Autsave ptin is used and a rather cmplex experiments are acquired. Als it shuld be avided t use Experiment Designer with nly ne acquisitin blck. (#132269) Spt Bleach series with different scan speed shws image artefacts. These are caused by laser excitatin bleed-thrugh due t the spt bleach mde. Unchecking different scan speed slves this issue. Incrrect frame rate with specific, very small image frmats. The displayed acquisitin frame rate might be higher than the actual frame rate when very small frmats (e.g. 128x48) are used. The displayed scan time is crrect. This behavir is nly bserved when reducing the sampling after using crp. Try t keep the sampling after crpping. (#109491) Time series experiments with ROIs (regins) selected in acquisitin mde cmbined with Autsave functin des nt indicate the end f the experiment crrectly. The experiment is crrectly executed, but the Stp buttn remains active, indicating nging data acquisitin. The Stp buttn has t be pressed manually after the experiment is finished. Range indicatr as a channel clr is nt crrectly displayed. When the Range indicatr is chsen as a Lk up table (LUT) clr in the Channel tl windw, it is nt used in the image display. Chsing the Range indicatr in the image display tab in the image cntainer, makes this functin accessible. During cntinuus scans, the image inside the Hist view tab flickers, if the ptin exchange x and y is selected. (#132644) Andr ixn cameras recrd a single darker frame when they are used in triggered mde and Gain r Expsure settings are changed during the acquisitin. (#131286) Inside the Imaging Setup tl windw fr Lambda acquisitin with LSM 700, nly ne dye spectrum can be displayed. (#131747) The bidirectinal peratin mde f the Piez des nt wrk fr multi-track experiments. Instead unidirectinal mvement f the Piez is perfrmed. Bidirectinal mvement wrks fr line-wise trackswitching and fr single-track experiments. (#111986) Mvement f the stage fr multi-well sample carriers n Axi Imager is nt crrect. This is nly the case if the well names are used. Please use psitin lists instead. (#114353) After cutting a regin frm a PALM Z-stack the resulting image initially remains dark. Please mve the slider fr the Z-psitin t trigger an update f the image cntent. (#113742) Marker fr autfcus events are lst when Airyscan prcessing f anther dataset is perfrmed during time series acquisitin. (#132841) During the acquisitin f hetergeneus experiments with Experiment Designer, the cunter fr psitins with infrmatin abut the currently acquired blck might nt be updated crrectly. (#132734)

7 Tile-Datasets cntaining bth Airyscan and cnfcal channels might nt be stitched crrectly when the Airyscan prcessing is perfrmed directly after acquisitin using the 3D ptin. Please save and repen the file befre prcessing. (#132594) Systems with PCO cameras might shw an errr message that the camera is nt switched n and the errr lg cntains the infrmatin that a DLL culd nt be fund. Please cntact the technical supprt if yu encunter this issue. (#131666)