Install a suitable JRE on your computer and create an entry in the Eclipse JRE inventory under the same name that the project expects.Įither of the above will trigger a project (and possibly a workspace) rebuild, so it's a good time to brew a cuppa after you've made the change. Find an equivalent installed JRE and modify the project to use it.Ģ. You have 2 options, based on what examining the currently installed JREs tells you.ġ. In the case of this particular project, it appears that a specific JDK/JRE was configured and that the name of the JRE that was requested does not match any of the names defined in this installation of Eclipse (RSA). In your project, you have the option to use the default JRE or to select one of the other JREs. 'Installing' means that you define a name that points to where the corresponding JRE is located on your local filesystem. See the Window/Preferences/Java/Installed JREs menu/dialog sequence. In Eclipse you 'install' JDKs/JRE's into Eclipse's Java inventory. I tried rebasing it over origin/master but there are conflicts. Done.$ cd bigdataviewer-core$ git checkout trakem2Branch trakem2 set up to track remote branch trakem2 from origin.Switched to a new branch 'trakem2'$ mvn packageINFO Scanning for projects.INFO -INFO BUILD FAILUREINFO -.So it seems like that branch is non-functional at the moment. You could simply build the branch from the command line, then replace the bigdataviewer-core of your Fiji with the new one.I tried to test this, but ran into problems with the branch: $ git clone git:///bigdataviewer/bigdataviewer-coreCloning into 'bigdataviewer-core'.remote: Counting objects: 15194, done.remote: Total 15194 (delta 0), reused 0 (delta 0), pack-reused 15194Receiving objects: 100% (4), 18.99 MiB 6.79 MiB/s, done.Resolving deltas: 100% (8167/8167), done.Checking connectivity. It seems like you are just trying to build the trakem2 branch of the bigdataviewer-core repository?So then, let’s take Eclipse out of the picture. Or if not directly acessible as a plugin, I would run it with something like this import ansfer(someArgs)in a python script.Thanks for your help.P.S.: an example of other things I would like to do (and why I was initially thinking that I would better set up a good Fiji/Eclipse environment) was to use the 2D segmentation of for the detection step in Trackmate.
I imagine that at the end I could have a plugin (I would find it by pressing “l” in Fiji), for example “trakem2 to bdv”, that I would easily run from a python script/plugin with for example a IJ.run(‘trakem2tobdv’, some arguments). Maybe I can describe precisely what I want to do: transfer a trakem2 project into bdv following. In this case you might try the BigDataBrowserPlugin of the bigdataviewerfiji component.What you describe probably consists of a few simple steps but it is obscure to me. Ctrueden:Rather, each project generally has one or more main methods somewhere intended to allow you to take things for a test drive. For example, nowadays Java provides an installer for Linux (deb and rpm) but still I prefer to install it manually.In the Eclipse console I getERROR COMPILATION ERROR:INFO -ERROR No compiler is provided in this environment.
On the other hand, personally I prefer to install a software manually because it gives more control over what goes where. In case of Eclipse, the Eclipse foundation does not offer its own repository.
Most of the times you can install a software using single command (for example Gimp or LibreOffice) because the software creators also provide Linux installers and repositories.
This article helps you to install it for all users and creates a shortcut in the start menu. You can download and extract the file and just start using it.
years ago when I was a Windows user I did download the zip file and extracted it somewhere and created a desktop shortcut).
Eclipse is really a portable application (doesn't matter whatever the OS is. In Eclipse you install JDKs/JREs into Eclipses Java inventory.