Question: Unified Genotyper ERROR (Deprecated tool at Galaxy Main http://usegalaxy.org)
0
gravatar for braveen.joseph
12 months ago by
braveen.joseph20 wrote:

Hi, I got the following error using running cloudmap workflow. This Error occurs when I Unified genotyper. Anyone knows why?

Picked up _JAVA_OPTIONS: -Djava.io.tmpdir=/galaxy-repl/main/scratch -Xmx15872m -Xms256m [Thu Dec 01 21:54:47 CST 2016] net.sf.picard.sam.CreateSequenceDictionary REFERENCE=/galaxy-repl/main/scratch/tmp-gatk-khhgdF/gatk_input.fasta OUTPUT=/galaxy-repl/mai

Thanks.

ADD COMMENTlink modified 12 months ago by Jennifer Hillman Jackson23k • written 12 months ago by braveen.joseph20
0
gravatar for Jennifer Hillman Jackson
12 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

All GATK tools at http://usegalaxy.org and https://toolshed.g2.bx.psu.edu/ are older versions and have been deprecated.

This means that any may present problems that will not be corrected.

Alternatives for variant analysis can be found in our tutorials here: https://galaxyproject.org/learn/

Thanks, Jen, Galaxy team

ADD COMMENTlink modified 8 weeks ago • written 12 months ago by Jennifer Hillman Jackson23k
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