jblas causes UnsatisfiedLinkError on aarch64 (m1) mac

[sirno]

jblas doesn't support m1 (jblas-project/jblas#134 )as @tgvaughan mentioned in CompEvol/beast2#1047

This results in the following errror.

java.lang.reflect.InvocationTargetException
	at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:119)
	at java.base/java.lang.reflect.Method.invoke(Method.java:577)
	at beast.app.beastapp.BeastLauncher.run(Unknown Source)
	at beast.app.beastapp.BeastLauncher.main(Unknown Source)
Caused by: java.lang.UnsatisfiedLinkError: 'void org.jblas.NativeBlas.dgemm(char, char, int, int, int, double, double[], int, int, double[], int, int, double, double[], int, int)'
	at org.jblas.NativeBlas.dgemm(Native Method)
	at org.jblas.SimpleBlas.gemm(SimpleBlas.java:247)
	at org.jblas.DoubleMatrix.mmuli(DoubleMatrix.java:1781)
	at org.jblas.DoubleMatrix.mmul(DoubleMatrix.java:3138)
	at org.jblas.MatrixFunctions.expm(MatrixFunctions.java:428)
	at multitypetree.operators.UniformizationRetypeOperator.getBranchTypeProb(Unknown Source)
	at multitypetree.operators.NodeShiftRetype.nonRootProposal(Unknown Source)
	at multitypetree.operators.NodeShiftRetype.proposal(Unknown Source)
	at beast.core.Operator.proposal(Unknown Source)
	at beast.core.MCMC.propagateState(Unknown Source)
	at beast.core.MCMC.doLoop(Unknown Source)
	at beast.core.MCMC.run(Unknown Source)
	at beast.app.BeastMCMC.run(Unknown Source)
	at beast.app.beastapp.BeastMain.<init>(Unknown Source)
	at beast.app.beastapp.BeastMain.main(Unknown Source)
	at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104)
	... 3 more
-- org.jblas INFO Deleting /var/folders/sl/b99vml7s45q3zx3wb1fqvq240000gp/T/jblas15640803248391520753

[tgvaughan]

Thanks Nicolas :)

[sirno]

Actually I just checked again, and it looks like version 1.2.5 should work on arm64, which is one minor version higher than what is packaged with mtt. https://github.com/jblas-project/jblas/pull/118

[triple-jay]

Actually I just checked again, and it looks like version 1.2.5 should work on arm64, which is one minor version higher than what is packaged with mtt. jblas-project/jblas#118

Hi, I'm running into the same issue—were you able to solve this? I tried replacing the jblas 1.2.4 jar file with jblas 1.2.5 and still ran into the same issue.

[tgvaughan]

Hi @triple-jay, I've just released a new version of MTT which includes (and is compiled against) the new jblas. Maybe this helps get things working on your system?

[triple-jay]

Thank you for your quick response and help! Unfortunately, it still is giving the same error 🥲

[tgvaughan]

Sorry to hear this. :-/ I think we're a bit stuck in this case then as far as apple silicon goes. Unless somebody has time to port MTT to a new linear algebra library which is supported on that hardware, or to include a Java-only implementation of the matrix computations. (This latter approach would probably incur quite a speed penalty.)

For now it seems that MTT will have to remain an intel-only package :-(

[triple-jay]

Got it thank you so much for your help :)