These are chat archives for fiji/fiji

4th
Aug 2016
Stefan Helfrich
@stelfrich
Aug 04 2016 06:07
@fjug I can't confirm the issue, everything works fine for me. Can you ping imagej.net?
Florian Jug
@fjug
Aug 04 2016 08:42
Back… I’ll go and check if sleep helped solve the issue… ;)
Ok, the issues with uploading and connecting to update sites in general are gone… I’m still convinced that something was not working fine yesterday when I tried… :D
(this was NOT a user error!!!) :D
Stefan Helfrich
@stelfrich
Aug 04 2016 08:47
Sadly, you posted a screenshot. Otherwise, that would have been a classic "Pics or didn't happen" scenario :-P
Florian Jug
@fjug
Aug 04 2016 08:48
:D
Unfortunately I still have the problem that calling the scale op works when I start from eclipse, but doesn’s as soon as I deployed to fiji… :(
I could summarize on what the heck I am doing if anybody feels he wants to listen… ;)
I could also switch to the forum… since this might be of general (and persistent) interest...
Stefan Helfrich
@stelfrich
Aug 04 2016 08:50
Go ahead :)
Florian Jug
@fjug
Aug 04 2016 08:50
Forum post to appear soon, ok?
Stefan Helfrich
@stelfrich
Aug 04 2016 08:50
I guess, there is no GitHub repo yet with your code?
If find it easier to be helpful if I can get a more complete picture..
Florian Jug
@fjug
Aug 04 2016 08:52
Sure there is… might be private… let me check...
@stelfrich you’ve got mail… (I guess)
Stefan Helfrich
@stelfrich
Aug 04 2016 08:56
Indeed.
Sacha Muszlak
@samusz
Aug 04 2016 13:49
Hi Fiji users. I am looking for a way to (at least) get a warning before overwitting a file when I save, eg a result of a mesure or an roi.
I know this seems trivial ...
Curtis Rueden
@ctrueden
Aug 04 2016 14:00
@fjug Your IP was temporarily banned last night due to wrong password attempts.
@aneevel Please raise the limit from 3 to 10.
@samusz One way would be to use a script and check for file existence first.
Florian Jug
@fjug
Aug 04 2016 15:06
@ctrueden great, thanks for info… (so I am NOT crazy! :D )
Curtis Rueden
@ctrueden
Aug 04 2016 18:44
Has anyone tried Zeppelin or Beaker notebooks? @kmader ? How do they compare to Jupyter? I ask because we are looking to create a comprehensive set of SciJava tutorials (pulling together all the current GitHub tutorials repositories, and adding more), and would like to use a notebook format as the basis.
Hadrien Mary
@hadim
Aug 04 2016 18:53
I don't know about Zeppelin or Beaker but I've been an intensive user of former IPython now renamed Jupyter notebook and it's an amazing tool. The project is very active. See this blog post about the future Jupyter interface which seems really great http://blog.jupyter.org/2016/07/14/jupyter-lab-alpha/. Being the first "notebook" Jupyter has now a pretty big scientific community working with it. See for example theses notebooks about the LIGO project : https://losc.ligo.org/tutorials/
As I said I don't know the others competitors and if they have to become popular, I hope the community will agree on a common notebook format :-)
Curtis Rueden
@ctrueden
Aug 04 2016 20:02

I hope the community will agree on a common notebook format

:laughing: :snowman: :fire: :broken_heart:

By which I mean: no chance in hell. :stuck_out_tongue_closed_eyes:
But it is a noble dream.
Jean-Yves Tinevez
@tinevez
Aug 04 2016 20:53
Oh I would not be that pessimistic. We have a leader; he is listened to.
Curtis Rueden
@ctrueden
Aug 04 2016 21:31
@tinevez I believe that our community (ImageJ/Fiji/SciJava/what-have-you) will choose a notebook format, sure. But "the scientific community" has no such leaders (that I know of), and therefore probably will not.
Hadrien Mary
@hadim
Aug 04 2016 21:35
The thing is notebook format are not governed by industrial company such as for image microscopy format so they is still hope !
Curtis Rueden
@ctrueden
Aug 04 2016 21:40
@hadim How so? We already have three major competing formats: Jupyter, Zeppelin and Beaker. I see no chance of them converging. It doesn't happen with programming languages, so why with notebooks?
I guess it's possible if a standards body develops, and each notebook software supports the same standard, sort of like web browsers and HTML5.