Installation of GenomeSTRiP on slurm

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Thandeka

• February 03, 2020 14:12

Good afternoon,

My colleagues and I have been trying to install GenomeSTRiP on slurm, when we do the test run we in counter the following error: 

Error occurred during initialization of VM Unable to load ZIP library: /cbio/soft/jdk1.8.0_211_v3/jre/lib/amd64/libzip.so 

Could you please assist us, what are we doing wrong? It has been months now with no success in getting GenomeSTRiP work.

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  Bhanu Gandham

  • February 03, 2020 22:50

  Hi Thandeka

   

  Bob Handsaker will be able to help you out with your question. 

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  Thandeka

  • February 04, 2020 06:08

  Thank you Bhanu Gandham, I will wait for his response.

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  Bob Handsaker

  • February 05, 2020 04:01

  This doesn't appear to have anything to do with Genome STRiP per se. It looks like java 1.8 isn't installed correctly.

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  Thandeka

  • February 05, 2020 10:07

  Thank you, Bob Handsaker,

  Which java version is more compatible with Genome STRiP?

  We want to do a CNV analysis using whole-genome sequencing data. The platform/cluster that we using runs on slurm.

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  Bob Handsaker

  • February 05, 2020 13:16

  It looks like you are trying to run java 1.8, which is the recommended version. But it looks like it is not installed correctly. There are also multiple versions of java (e.g. openjdk). You can try running 'java -version' but that may not tell the whole story. You are better off working with your system administrator to get basic java running.

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  Thandeka

  • February 05, 2020 13:18

  Thank you Bob

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