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  • Aug 16 17:34
    acardona opened #231
  • Aug 07 13:48
    chalkie666 opened #230
  • Aug 02 13:33
    tinevez labeled #107
  • Aug 02 13:33
    tinevez labeled #107
  • Aug 02 13:32
    tinevez opened #107
  • Aug 02 13:30
    tinevez commented #106
  • Aug 02 13:29
    tinevez synchronize #106
  • Aug 02 13:29

    tinevez on serialize-feature-model2

    Avoid feature name inflation wh… Update the MaMuT exporter examp… (compare)

  • Jul 18 11:57
    tpietzsch commented #106
  • Jul 18 11:44
    tinevez commented #106
  • Jul 18 11:41
    tpietzsch commented #106
  • Jul 18 11:32
    tinevez commented #106
  • Jul 18 11:31
    tpietzsch commented #106
  • Jul 18 11:20
    tpietzsch synchronize #106
  • Jul 18 11:20

    tpietzsch on serialize-feature-model2

    formatting Demonstrate that feature names … Add TODO and 2 more (compare)

  • Jul 10 13:08
    tinevez closed #104
  • Jul 10 13:08
    tinevez commented #104
  • Jul 10 13:08
    tinevez opened #106
  • Jul 10 10:56

    tinevez on serialize-feature-model2

    Fix weird compile error with Op… Make some static methods of MaM… JUnit test for the TrackMate im… and 5 more (compare)

  • Jul 09 11:01

    tinevez on serialize-feature-model2

    Move test data to proper packag… WIP: Junit test for MaMuT expor… (compare)

Ulrik Günther
@skalarproduktraum
and here are the models for the examples: https://cloud.mpi-cbg.de/index.php/s/wFgWctbwa2PoiU3 — i’ll link them in the repo as soon as i’ve disentangled the copyrights :D
ah and for the models, extract them in some directory and when you run the examples, set the env var SCENERY_DEMO_FILES to that directory
@tinevez: what does threedviewer complain about at the moment?
or wait, i’ll quickly clone it
Ulrik Günther
@skalarproduktraum
@tinevez are you also getting the error about ArcballCameraControl missing?
okay, found it — change the version of scenery in the pom from 1.0-SNAPSHOT to 1.0.0-SNAPSHOT
Ulrik Günther
@skalarproduktraum
and i’m currently fixing some issues due to recent changes, will be finished in a few min
Ulrik Günther
@skalarproduktraum
@tinevez there was actually a missing package name in one of the classes, sorry about that, i fixed this now and the new versions are up on the nexus
https://github.com/skalarproduktraum/ThreeDViewer here’s a fixed ThreeDViewer version as well
one issue might still be there — theres a openvr.jar in the scenery repo that needs to be installed manually, in case you get an error about openvr follow the instructions in the scenery repo — sorry about the inconvenience
i’ll be on vacation from this afternoon on with occasional access to email, @kephale has a very good understanding of scenery and will probably be able to help from monday on :+1:
Jean-Yves Tinevez
@tinevez
Woa thanks!
Yes you describe about everything that happened to me sequentially this morning ;)
Florian Jug
@fjug
Two jobs open, earliest starting date: Nov. 1st.
Apply, spread the word, let me know where I could post it to reach the right people… Thanks a lot!
Done: mailing list
Stefan Helfrich
@stelfrich
Florian Jug
@fjug
Awesome!
Kyle I S Harrington
@kephale
any chance i could get access to credentials for ThreeDViewer's Travis->ImageJ Maven deployment?
Curtis Rueden
@ctrueden
@kephale I created an account for you on maven.imagej.net. Will send your credentials via PM.
Kyle I S Harrington
@kephale
@ctrueden thank you!
Curtis Rueden
@ctrueden
You are very welcome! ^_^
Kyle I S Harrington
@kephale
@tinevez ThreeDViewer artifact is up on maven.imagej.net
sorry about the delay :X
Jean-Yves Tinevez
@tinevez
Thanks!
Robert Haase
@haesleinhuepf
@kephale jeey! cool :)
Curtis Rueden
@ctrueden
@kephale :+1: Thanks!
Jan Eglinger
@imagejan
@tinevez please let me know as soon as there is a citable paper for TrackMate specifically. For the time being I keep recommending the 2012 Fiji paper :)
Jean-Yves Tinevez
@tinevez
Well we just passed first review. I just sent my corrections to the other authors. However, the paper will be published at best end of Q1 2017...
Hadrien Mary
@hadim
What journal ?
Jean-Yves Tinevez
@tinevez
Methods.
Hadrien Mary
@hadim
Sweet. Congrats !
Curtis Rueden
@ctrueden
@aneevel It looks like our cert auto-renew scheme is not working: https://fiji.sc/ says the cert expired 6 days ago. :frowning:
Hadrien Mary
@hadim
I don't know your setup @ctrueden but I found the following to work very well in the past and I use it in production : https://github.com/JrCs/docker-letsencrypt-nginx-proxy-companion
Curtis Rueden
@ctrueden
Thanks @hadim. @aneevel is indeed currently working to Dockerize everything. And we do use Let's Encrypt. But we use Apache, not nginx.
@aneevel Also https://sites.imagej.net/ is expired now.
Hadrien Mary
@hadim
Well you can have your servers in apache and only use this nginx proxy (https://github.com/jwilder/nginx-proxy) to redirect traffic where you want.
But homemade solution are maybe the best for you :-)
Alec Neevel
@aneevel
@ctrueden This is just a problem with the auto-renew script I set up. It should be a very simple fix that I can handle tomorrow morning.
Curtis Rueden
@ctrueden
@aneevel Great.
Kyle I S Harrington
@kephale
for the record, as more folks shift to travis, it will probably be worth thinking harder about how to manage dependencies for both maven deployment and update sites, the bootstrap script has some hardcoded stuff that is bitrotting and i believe there is some redundancy in package fetching
Curtis Rueden
@ctrueden
@kephale Definitely. My goal is to migrate the bootstrapping to instead use mvn -Dimagej.app.directory rather than pulling down the state of an update site.
The reason for the hardcoded stuff was to ensure a working base state before updating... there is little reason to update those versions often. Though Johannes used to do so occasionally, and now I never do.
Kyle I S Harrington
@kephale
gotcha, the mvn w/ directory param solution sounds awesome
Curtis Rueden
@ctrueden
@kephale Keep buggin' me to finish that. This comes down to fully solving fiji/fiji#39, which I have pursued on and off for years now.
(and fiji/fiji#37 and fiji/fiji#38, intrinsically related work)
nstifani
@nstifani
Hi there, I was wondering how useful or complex should a script be to be considered as a potential plugin? I have written few things (useful but no rocket-science) and I believe it could be interesting to share it... Any suggestions?
Curtis Rueden
@ctrueden
@nstifani When you say "considered as a potential plugin" do you mean: at what point should you port it to a Command plugin written in Java, instead of keeping it as a script?
I would say "maybe never"... scripts are really good. One consideration is if you are doing a lot of control structures like loops... that might be slower depending on the script language. Worth testing.
Of course, there are many other types of plugins besides Commands, which cannot be written as scripts currently.