[FLIMfit-users] WG: FLIMfit 5.1.1

[Support list for users of FLIMfit Fluorescence Lifetime Imaging tool.]

Hi Andre,

The data import for some versions depends on a mex file which is, in principle, specific to the MATLAB version you're using. I have 2018a installed so I can send you this file in the morning.

For future, the script GatherDependencies.bat should collect and install bioformats, init4j and omero. This might fail behind a proxy though?

Best regards,
Sean

Get Outlook for Android<https://aka.ms/ghei36>




On Fri, Aug 3, 2018 at 5:22 AM +1000, "Support list for users of FLIMfit Fluorescence Lifetime Imaging tool. via FLIMfit-users" <flimfit-users at lists.openmicroscopy.org.uk<mailto:flimfit-users at lists.openmicroscopy.org.uk>> wrote:

Dear Sean,
thanks a lot for immediate response.
Installation of standalone worked fine.

However still failed to run FLIMfit from Matlab which I would prefer for customized usage and better data control

-          "git submodule update --init --recursive" worked

-          Added OMEuiUtils.jar

-          Added ini4j.jar

-          Added 'BFMatlab'

-          Added 'OMERO Matlab plugin'

-          Copied 'FLIMGlobalAnalysis_64.dll' from standalone version

-          Added all subfolders from 'FLIMfitFrontEnd' & 'FLIMfitLibrary' to Matlab path

With this I could finally start main window.
Data import however failed

Error in FlimReader (line 2)
    [msg,varargout{1:nargout}] = FlimReaderMex(varargin{:});
…

Does it mean that I have to compile mex functions?
Or are they provided somewhere (Win10 64bit)?
As you said, would be nice avoiding compiling.

Best

Andre


Von: FLIMfit-users <flimfit-users-bounces at lists.openmicroscopy.org.uk> Im Auftrag von Support list for users of FLIMfit Fluorescence Lifetime Imaging tool. via FLIMfit-users
Gesendet: Donnerstag, 2. August 2018 17:48
An: flimfit-users at lists.openmicroscopy.org.uk
Betreff: Re: [FLIMfit-users] FLIMfit 5.1.1

Dear Andre,
I would recommend running FLIMfit from the compiled version. To avoid downloading files at install time, please install the MATLAB 2016b compiler runtime (linked from https://flimfit.org/downloads/5.1.1/) before running the flimfit installer.
For reference, the missing files are contained within a git submodule. To obtain these files you need to update git submodules after you checkout the code using
git submodule update --init --recursive
More about git modules can be found here: https://blog.github.com/2016-02-01-working-with-submodules/
Dear all; Many apologies for the subsequent 'spam' emails on the list which I accidentally released!
Best Regards,
Sean

Dr. Sean Warren | Research Officer
Invasion and Metastasis
Cancer Division
Garvan Institute of Medical Research



From: Support list for users of FLIMfit Fluorescence Lifetime Imaging tool. via FLIMfit-users
Sent: Friday, 3 August, 01:34
Subject: [FLIMfit-users] FLIMfit 5.1.1
To: flimfit-users at lists.openmicroscopy.org.uk<mailto:flimfit-users at lists.openmicroscopy.org.uk>

Dear all,
since I was not able to rum FLIMfit inside Matlab (see previous post) I tried to install FLIMfit 5.1.1 standalone.
Any idea how to do so within proxy environment?
Installation routine tries to connect to internet without proper proxy settings.

Any idea how to install FLIMfit via proxy?

Thanks in advance

Andre



------------------------------------------
Dr. Andre Zeug
Cellular Neurophysiology (OE4230)
Hannover Medical School
Carl-Neuberg-Str. 1,
30625 Hannover
Germany

Tel:  +49 511 532 5026
Fax: +49 511 532 8302
mailto: zeug.andre at mh-hannover.de<mailto:zeug.andre at mh-hannover.de>
http://www.mh-hannover.de/cellneurophys/AZ.html



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