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Old 05-10-2021, 08:11 AM   #1
Junior Member
Location: Argentina

Join Date: Mar 2020
Posts: 3
Default bbduk memory error

Hello everyone,

I've installed bbmap throw 'sudo apt-get install bbmap' and also by downloading the package, untaring it and adding the path to the directory in the .bashrc file. However, when running " --version" or a script " -Xmx ..." I get the following error:

/usr/bin/ línea 344: /usr/share/bbmap/calcmem: No existe el archivo o el directorio
/usr/bin/ línea 345: setEnvironment: orden no encontrada
/usr/bin/ línea 346: parseXmx: orden no encontrada
/usr/bin/ línea 350: freeRam: orden no encontrada
java -Xmxm -Xmsm -cp /usr/share/java/bbmap.jar jgi.BBDuk --version
Invalid maximum heap size: -Xmxm
Error: Could not create the Java Virtual Machine.
Error: A fatal exception has occurred. Program will exit.

I've tried -Xmx with different amounts of memory and receive the same error. Also, the folder /calcmem does indeed do not exist. Any ideas on how to solve this problem?

Thank you!
gastonviarengo is offline   Reply With Quote
Old 05-10-2021, 10:38 AM   #2
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Location: East Coast USA

Join Date: Feb 2008
Posts: 7,127

Cross-posted and answered here:

Please use that answer.
GenoMax is offline   Reply With Quote

bbduk, bbtools, java, memory

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