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How to programmatically start Netlogo on a multi-monitor setup, with mixed high-dpi and low-dpi displays?

Netlogo starts on my monitors with a really tiny font. The GUI is unusable. I cannot enlarge the GUI widgets.
Does anyone know how to do this programmatically, via bash Command Line Options, or environment variables or any other way?
I have a standalone Linux PC with 2 Monitors and an NVidia 1050 graphics card. The primary display is an older 1920x1280 pixel monitor (25-inch), the other is a 3840x2560 pixel Monitor (27 Inch). I had to tweak my Gnome desktop, to get the graphical desktop and most apps to render properly at all: After switch on a certain setting, "Fractional Scaling", located in Settings / Display.
But not NetLogo.
I found a solution for the java-based Data-Mining Tool "Weka", based on Environment variables. To display the Weka GUI properly, Weka must not be started with the standard
java -cp weka.jar weka.gui.GUIChooser # Tiny GUI
but with
export GDK_SCALE=3; java -cp weka.jar weka.gui.GUIChooser # GUI is readable
But for NetLogo, which also a jar-based Java App, just like Weka, this does not have any effect:
~/bin/NetLogo 6.2.2/NetLogo # Tiny GUI
export GDK_SCALE=3 && "~/bin/NetLogo 6.2.2/NetLogo" # Tiny GUI
Environment variables do not seem to have any effect. Is there a magic command-line option, perhaps, that I can pass to netlogo? Any setting in the NetLogo GUI itself? A Netlogo Command?
I am posting this here because I know the Netlogo developers keep an eye on this site (but AFAIK not on one of the smaller StackExchange sites)
There are quite a few answers here when you search for [highdpi] but most Q+As refer to different technologies, not Java.

java L&F to obtain modern "wpf" look

Recently I found some absolutely beautiful applications made using WPF.
I'd really like to add this lovely look to my java applications.
Do you know if there are look and feels which make it possible?

First of all think what are the key concepts of the new metro-UI ?
Its flat and simple
1) use metro studio 2 to create icons for the project, use flat borders always
2) either create a full L&F or simply create small custom components ? or use Java FX (http://pixelduke.wordpress.com/2012/10/23/jmetro-windows-8-controls-on-java/ , http://pixelduke.wordpress.com/category/javafx/page/3/)
I was able to come little bit close to metro like text-buttons and background repeat panels, you might also want to see my repo here https://github.com/JaDogg/BhathiGUI
above image is for my near metro custom controls
NOTE : this will not create an actual metro app just one that looks like it
Update
Here is a screenshot of JavaFX application built using Undecorator and JMetro (JavaFX8)

Java was always stingy on new L&F. So new WPF style (developed for Windows 8 apps) is not available yet and i doubt it will be anytime soon.
The latest L&F released and provided together with Java SE was NimbusLookAndFeel. It is based on SynthLookAndFeel, which supposed to be a base for any custom L&F from now on.
There are also native L&Fs with:
Windows 2000 and Vista/7 styles (WindowsLookAndFeel)
GTK style (GTKLookAndFeel)
Mac OS style (AquaLookAndFeel)
There are also some good commercial L&Fs:
Java Look and Feel (L&F)
So if you really want to have such L&F - you will have to modify some existing L&F so it matches WPF styling or wait for a miracle (that someone will release such L&F).

How to make Java look like Windows programs?

Is there a way (using Java) to make the GUIs that you create look like normal Windows programs? I don't like the look and feel of the Java buttons and scrollers and stuff... It can use those if it's running on Mac or Linux, but I'd like it to inherit the buttons and stuff from Windows. Any suggestions?

You can set the look and feel of any Swing program to the native operating system's with one call.
UIManager.setLookAndFeel(UIManager.getSystemLookAndFeelClassName())
The Windows PLAF can be seen in the Nested Layout Example.

How to make your desktop Java app looks like Open Office or Eclipse etc.?

How to make your desktop Java app looks like Open Office or Eclipse etc ?
Installation process looks like any Windpws app. installation. There is no Java logo on the to on a app window. You run it by .exe file. How it is done? Is this jar->exe conversion?
Is there any free tool to do that?

For the native look, you can obviously go the SWT way, like Eclipse does, however it's a painful one. You could/should prefer the Swing look'n'feel, by using, as an example, the Substance Look'n'Feel.
For the installation part, you can use
InstallAnywhere
IzPack
For the exe wrapper, you can use
Launch4J
JSmooth
or others ...
However, I think that, by doing so, you're doing it wrong.
indeed, instead of the classical download/install step, which is cumbersome, you can go the Java Web Start way : user only has to click one webpage link to install application to its machine (with an update mechanism directly integrated in), an install that go as far as potentially including desktop and start menu shortcuts, and an element in the Windows install panel to remove installed software.

I tried Jar2Exe, and JSmooth, they both produce exe files from jar archives.

The question is a little unclear, but I think that what you're after is making your java app behave like a native app (stuff like running it when an icon is double-clicked, etc...). There is an excellent tutorial on this here.

Note that, for the graphic part, Eclipse uses a library called SWT, which is a set of widgets that feel and behave in a different way that Java Swing or AWT.
Anyway, if you go the normal Java (Swing) way, the Java logo on the top of an app window is setIconImage() method in JFrame components.
Riduidel already told you about .exe wrappers and installers you can use. For the installer, I also suggest you to consider Java Web Start instead of a normal Windows installer.

I think it uses LookAndFeel, I let you read: http://download.oracle.com/javase/tutorial/uiswing/lookandfeel/plaf.html
try {
UIManager.setLookAndFeel(UIManager.getSystemLookAndFeelClassName());
}
catch(Exception e){}
EDIT: I didn't read the entire question ^^' Maybe it will be useful to someone...

Java Swing positioning elements differently in different operating systems

I have written a Java Desktop Application that runs in Windows, Mac OS X, Ubuntu and Open Suse. I am having issues with is positioning thing differently in Linux.
I developed the application with NetBeans using the designer, it looks as I would expect in Windows and Mac OS X, but in the Linux distros certain label controls have shifted into different positions.
Is there a common reason for this?

Perhaps Linux uses a different font. One where letters have a different width.
You could try to explicitely set a specific font for your Look&Feel. It should be a font which is installed on all of your target platforms.

The most probable thing is that you use different Look and Feel for every platform. If you're developing in Windows you do layouts to fit for Window style only. But Linux has different L&F with different margins and font for GUI components. Metal style (basic for Linux) and its descendants (Nimbus and GTK+) have larger default system font and heights for components. I think, that must be a reason why you have shiftings.
The way to fix that is to check program looking in both platforms. I'd suggest to develop in Metal style because Windows has smaller fonts, as result, everything which fits in Metal will fit in Windows.

I'm assuming you developed the thing on Windows or Mac, that's why it looks "as expected". Can you compiling/running the code in your IDE on Linux and see how it looks?
My guess is that one of the implementations of the containers is flawed. I saw this sometimes when I did cross-development and mostly did trial-and-error modifications to fix it (by changing to use other classes). It also helped to have one developer working in Windows and another in Linux, so that we would easily spot and fix problem areas.

I changed the Layout style from 'Free Design' to 'Absolute'