Troubleshoot beagle library

IFB Core Cluster Tool or data bank request
1

Bonjour,

I'm using beagle_SSE option in my BEAST2 batch file runs to facilitate threading (see attached files
Envoi en cours : guerrero_std_30M.xml…
). But Beast can't properly access it leading to the following error: "Failed to load BEAGLE library: no hmsbeagle-jni in java.library.path: /.singularity.d/libs:/usr/local/lib:/usr/local/beast/jre/lib/amd64"
I think the solution is in the following link. LinuxInstallInstructions · beagle-dev/beagle-lib Wiki · GitHub

Can you please look into it? It'll save a ton of cluster time.
Merci beaucoup
Débo

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2

I am currently running beast2 on the IFB and I encountered exactly the same problem
When running beast -beagle_info, I get after the usual citations :
--- BEAGLE RESOURCES ---

Failed to load BEAGLE library: no hmsbeagle-jni in java.library.path: /.singularity.d/libs:/usr/local/lib:/usr/local/beast/jre/lib/amd64

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3

Hello,

I'm about to deploy beast2 2.7.6 with beagle-lib support
Could ou please provide me an XML file (link to zenodo or path to the cluster project folder) and instructions in order to make sure it is working fine ?

Best regards,

Julien

4

Bonjour,

Please find the link for (test) input file below.
/shared/ifbstor1/projects/sarscov2mex/08_mascotSkyline/test/combined_mascotSky.xml

To run this file with beagle, You'll need to first activate the mascot package in BEAUTI. More details are provided below.

To activate mascot, you'll need to install the package on the cluster. Instructions are given below.
https://www.beast2.org/managing-packages/#:~:text=Desktop%20machines,list%20to%20(un)install.

Please, let me know if I can help you in any other way.
Thank you very much for your help.
Debo