Posted by
Majurski, Michael Paul (Fed) on
URL: http://imagej.273.s1.nabble.com/ImageJ-version-of-FogBank-tp5019690p5019692.html
There is no official ImageJ/Fiji implementation of Fogbank. However, I do not know if another developer has ported the Matlab code independently.
Generally, the easiest way to run Fogbank is to download the source code and run it directly in Matlab (if you have a license).
If you don't have a Matlab license, download MCR 9.1 (R2016b) which was used to compile the latest executable available on the project page. With MCR 9.1 installed, you should be able to run the compiled executable on Windows.
Aryeh Weiss,
Once you installed the MCR were you able to run the executable version of Fogbank?
I just want to confirm that the problem is with the macros, and not with the executable directly. I can help with problems w.r.t. the executable, but I have no experience integrating with macros.
-Michael Majurski
Links:
Github repo for Matlab code:
https://github.com/usnistgov/FogBank
Project Page:
https://isg.nist.gov/deepzoomweb/resources/csmet/pages/fogbank_segmentation/fogbank_segmentation.html
Fogbank Wiki:
https://github.com/usnistgov/FogBank/wiki
On 2017-11-12, 02:34, "Aryeh Weiss" <
[hidden email]> wrote:
A bit over a year ago, there was a thread that mentioned FogBank (for
segmentation of phase images)
https://isg.nist.gov/deepzoomweb/resources/csmet/pages/fogbank_segmentation/fogbank_segmentation.html
and
https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Flist.nih.gov%2Fcgi-bin%2Fwa.exe%3FA2%3Dind1608%26L%3DIMAGEJ%26P%3DR12059%261%3DIMAGEJ%269%3DA%26J%3Don%26d%3DNo%2BMatch%253BMatch%253BMatches%26z%3D4&data=02%7C01%7Cmichael.majurski%40nist.gov%7C947b30faa1294958f2dc08d5299fb4f3%7C2ab5d82fd8fa4797a93e054655c61dec%7C1%7C1%7C636460688283844104&sdata=QVTcyvRvhOCT8%2FTrQwR%2BDlXVb6H4wSmNFUVCHtrcn9M%3D&reserved=0
Since then, has anyone ported this to ImageJ ?
Alternatively, can someone who has run this with mcr on macos can tell
me how to do that. (assuming it can be done on macos). I downloaded the
Matlab runtime compiler, but I cannot figure out how to get it to do
anything. There is documentation about how to set the paths, which I
could not follow.
Since there is a lot of matlab expertise on this list, maybe someone who
has done it can tell me how to set it up.
Thanks in advance
--aryeh
--
Aryeh Weiss
Faculty of Engineering
Bar Ilan University
Ramat Gan 52900 Israel
Ph: 972-3-5317638
FAX: 972-3-7384051
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