I am GATK (beta ) Unified Genotyper module to get the indels and SNP.
I placed the jar file in (/galaxy-dist/tool-data/shared/jars/gatk) and i
link the reference genome in .loc file (gatk_sorted_picard_index.loc). I
could see the Name i mentioned in the .loc file is appearing in the galaxy
page while choosing the Reference genome.
Now while running GATK in galaxy , The command runs for a while and gives
ERROR as i am getting ERROR as *(The fasta file you specified
(/tmp/tmp-gatk-Jjg9Mi) does not exist.)*
Could anybody suggest on the same..
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