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How to use jnaerator in a sbt project

I work on a Scala project that uses c++ code, using sbt. Once compiled, this c++ code is imported into Scala through Java code that uses jna.
Now, currently the Java wrapper are manually written, and I like to automatize this. I've found jnaerator that can do that, but I don't know how I should use it in sbt.
I see two general approaches:
use command line, such as java -jar jnaerator ... but I don't know how to setup such command line task in sbt? Also, I would need to know the typical project structure to follow: where to output the jna generated code?
Use jnaerator maven plugin through sbt, if it is possible?

This might take some iteration until we get it do what you need.
For the first approach, here is how you can run custom system command on sbt (you essentially solve this using Scala code). Add the following to your build.sbt file:
lazy val runJnaerator= taskKey[Unit]("This task generates libraries from native code")
runJnaerator := {
import sys.process._
Seq("java" , "-jar", "jnaerator", "..." ).!
}
To execute:
>sbt runJnaerator
Now the question is where do you need these files files to go? Finally, how do you want to invoke everything?

Generate a Java class from Clojurescript using Rhino

I'd like to do the following: I have a simple function written in Clojure/ClojureScript:
(defn add
[a b]
(+ a b))
I want to wrap this function into a Java class and put it in a jar so that I can access it in an existing Java/Android project. My previous approach was to use gen-class and create an uberjar. This however leads to some problems.
As an alternative approach I considered compiling the function using ClojureScript (a solution also suggested by Sam Beran).
So far I understand how to:
compile javascript files into Java classes
put them in a .jar
Compile ClojureScript
I'm not struggling to get the ClojureScript output into a format that can be passed on to the Rhino compiler.
Any thoughts?
IMPORTANT NOTE: I do not want to create a class with a main function as is done here!

One general way of going about this would be to:
At build time:
run the ClojureScript compiler to generate a JavaScript file
put the JavaScript file into the resource directory.
compile the Java class that uses it
make a jar file (an Uberjar or a normal Unterjar)
this Java class should:
make a java class that on initialization start up Rhino
on instantiation runs the javascript from the resource.
On a desktop of server you may not get the same awesome startup times My. Beran reported on android because processes on android have the advantage of starting life with a warmed up runtime with Rhino ready to go from the moment they start (they inherit it from the Zygote process)

Can I run a subset of pure Java code from an Android project via a regular Java main method?

I have some code in an Android project that parses HTML using Jsoup. It doesn't use anything Android specific, they're just static methods that take an InputStream, and return my model classes. The app uses Gradle to build itself in Android Studio.
Is there any way I can create a standard Java main method to do something like load HTML from a local file, run it through my parser, and output a JSON file (using Gson on my model class)? I'm thinking maybe I can add a new sourceSet to Gradle like a jvmCompatible set of classes? I would greatly prefer not to copy my code to a separate project.
EDIT:
I guess I didn't make this clear, but I would like the be able to run this locally on my dev machine from the command line, rather than on an Android device or emulator.

You don't necessarily need to do anything in the build file to set this up; the build file generates Java .class files, and you can feed them to Java directly from the command line. You can add a main method to any class:
package com.example.foo;
class MyClass {
...
public static void main(String [] args) {
...
}
}
The main method will be happily ignored util you invoke it via the Java command line. You can do this by setting your classpath to the intermediate build directory and telling the Java command line which class to start:
java -classpath app/build/intermediates/classes/debug/ com.example.foo.MyClass
where you pass in the path to the build/intermediates/classes/debug directory in your app module's build output, and the fully-qualified name of the class.
Note that if you're running a release build that uses ProGuard, this main method could get stripped out if it's not otherwise referenced in the code.
Make sure you don't access any Android classes or you'll get a runtime error.
As an aside, you might find it worthwhile to separate out your Java-only code into a Java-only module in the build. Among other things, it would let you use JUnit to write nice test cases for the classes within; if you're asking this question because you want to do some testing of your parser, you might find it convenient to do so within the auspices of a unit test.

Loading GAMS Java API in JRuby

I'm working on a Java/JRuby project which needs to be able to be able to interact with GAMS. I know we can use the Java API, but I would really like to be able to access it using JRuby if possible, since we're hoping to eventual add a DSL and some other complexity I'm not really excited about having to implement in pure Java.
Following the official Java API documentation for GAMS, I have downloaded and setup everything necessary to run GAMS from the command line, but I can't figure out how to include the GAMS directory in LD_LIBRARY_PATH and still run JRuby irb. When I run
export LD_LIBRARY_PATH=/home/wikk/Downloads/gams24.0_linux_x64_64_sfx
Then try to run irb with JRuby, I get
jruby: /home/wikk/Downloads/gams24.0_linux_x64_64_sfx/libstdc++.so.6: version 'GLIBCXX_3.4.15' not found (required by jruby)
I think this is what the documentation is asking me to do to run a Java program that calls the API, is there maybe some way to set LD_LIBRARY_PATH in irb, but before importing all the Java class files? I can do this successfully if I don't set LD_LIBRARY_PATH, but then GAMS tells me it can't find the main program when I try to create a new GAMSWorkspace object:
irb(main):002:0> ws = GAMSWorkspace.new
Java::ComGamsApi::GAMSException: could not find a GAMS system directory from
your environment variable, please set up properly before running a program!
from com.gams.api.GAMSWorkspace.verifySystemDirectory(GAMSWorkspace.java:335)
Am I doing this wrong? or does the API require some Java feature that isn't implemented in JRuby?

Finally came back to this problem, got it working through some trial and error. I also needed to run jruby with the -J-Djava.library.path=[GAMSDIR]/apifiles/Java/api flag, and add [GAMSDIR]/apifiles/Java/api/GAMSJavaAPI.jar to the classpath.
Once this is all in place, you can run gams models from ruby scripts:
import com.gams.api.GAMSWorkspace
import com.gams.api.GAMSJob
import com.gams.api.GAMSVariable
import com.gams.api.GAMSVariableRecord
import com.gams.api.GAMSWorkspace
ws = GAMSWorkspace.new
j1 = ws.addJobFromGamsLib('trnsport')
j1.run
j1.out_db.get_variable('x').each_entry do |rec|
puts "x(#{rec.get_keys[0]}, #{rec.get_keys[1]}): level = #{rec.get_level}, marginal = #{rec.get_marginal}"
end

I am writing here because it is the only thread related to the GAMS Java API problem.
In Eclipse, you have to go to "Run Configurations" and add two things:
1. (As already said) add a "-Djava.library.path=[GAMSDIR]\apifiles\Java\api\" to VM arguments
2. Go to Environment and SET explicitly a PATH variable to [GAMSDIR]. For some reason seeting path through windows is not working

Is there a way to run short bits of Java code without compiling?

Is there a way to run or simulate running Java statements (kind of like IDLE - the Python GUI) without compiling and running the executable? I want to quickly test statements to see if they work. Thanks.

Yep, you can use Eclipse, create a single project, and create a Scrapbook Page in that project.
You can also specify import statements: http://www.informit.com/articles/article.aspx?p=31789&seqNum=3
Scrapbook pages get their classpath
from the containing project's build
path. If in a scrapbook page you want
to reference a Java element that is
not on the build path of the
containing Java project, you need to
add to the Java project's build path.
Scrapbook pages also allow you to
specify import statements. You do this
by selecting Set Imports from the
context menu of a scrapbook page or
Set Import Declarations for Running
Code from the toolbar. You need to set
import statements for references to
Java declarations in your projects.
This is a common oversight. If the
type or package you are attempting to
import is not listed in the Add
dialog, it means you need to add it to
the build path of the project
containing the scrapbook page. If you
are referencing an element that has
multiple declarations, you will need
to add an import statement to uniquely
identify the element.
Edit: Got another solution too: http://ideone.com. It's an online IDE and debugging tool. You can see an example here: http://ideone.com/98sA8, but it looks like you have to set up a bit more than on a scrapbook page.
Edit 2:
Nowadays in Java 11, if it's a simple app in a single file you can run it directly from the java command (on the command line) which will handle all the compilation for you behind the scenes:
java HelloWorld.java
This is useful for students, as they can get started with Java without learning all of the javac compilation routine.

As of Java 11 (JEP 330) it is now possible to run Java files directly with the java tool:
java Factorial.java 3 4 5
is informally equivalent to
javac -d <memory> Factorial.java
java -cp <memory> Factorial 3 4 5
Java also added support for "shebang" files.
For more details see:
http://openjdk.java.net/jeps/330

Using Eclipse, you can create a Scrapbook page which will allow you to do exactly this.
Caveats:
You need to use full binary class names for anything outside of java.lang
You need to select the code (standard text selection) that you want to run
There are three different methods for running -- Inspect, Display, and Run. Inspect and Display are virtually the same, showing you the result of the last statement in your code (so you don't need to print it or anything), Run runs the selected code and dumps any output to the console view.

Never used it, but BeanShell seems to do what you want

You should be able to use Beanshell to do this:
http://www.beanshell.org/download.html
Your other alternative, if you're using Eclipse, is to make use of the scrapbook functionality:
http://help.eclipse.org/helios/index.jsp?topic=/org.eclipse.jdt.doc.user/tasks/task-create_scrapbook_page.htm

You can accomplish this with Groovy and the Groovy Console, with the caveat that you'd need to know how to express whatever you are trying to express in Java in the Groovy language:

you might want to checkout janino http://docs.codehaus.org/display/JANINO/Home also ..

JGrasp is the best solution. There is a thing called interactions, that's perfectly fine.

Use JShell, which is included by default starting from JDK 9. It is command-line based Read Eval Print Loop (REPL), where you can enter Java code, and get the results immediately.