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“programPath” file is a simple text file containing paths of the required external program.

For example, all external programs are included in the PATH, it could be something like this:

prodigal=prodigal
hmmsearch=hmmsearch
mafft=mafft
fasttree=FastTree
raxml=raxmlHPC-PTHREADS

If the prodigal’s program path is “./prodigal.osx.10.9.5” (I downloaded the prodigal Mac OS X version in the same directory as UBCG.jar file), it would be:

prodigal=./prodigal.osx.10.9.5
hmmsearch=hmmsearch
mafft=mafft
fasttree=FastTree
raxml=raxmlHPC-PTHREADS

 


Last updated on March 31, 2018

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