Add getDefaultOrganism(), getOrganism(), and setOrganism(), where:
setOrganism() sets the organism field of the object, which by default is not set (=NULL).
getOrganism() gets the organism field. if not set, then falls back to returning getDefaultOrganism().
getDefaultOrganism() tries to infers the organism from the aroma-flavored directory structure, e.g. annotationData/organisms/<organism>/Ensembl/79/foo.fa => <organism>. If this fails, an exception is thrown.
Add
getDefaultOrganism(),getOrganism(), andsetOrganism(), where:setOrganism()sets theorganismfield of the object, which by default is not set (=NULL).getOrganism()gets theorganismfield. if not set, then falls back to returninggetDefaultOrganism().getDefaultOrganism()tries to infers the organism from the aroma-flavored directory structure, e.g.annotationData/organisms/<organism>/Ensembl/79/foo.fa=><organism>. If this fails, an exception is thrown.