Uses of Class
compbio.runner._SkeletalCommandBuilder

Packages that use _SkeletalCommandBuilder

compbio.runner	Utilities commonly used by all runners.
compbio.runner._impl

Uses of _SkeletalCommandBuilder in compbio.runner

Methods in compbio.runner that return _SkeletalCommandBuilder

_SkeletalCommandBuilder	_SkeletalCommandBuilder.addParameter(String parameter) Deprecated.
_SkeletalCommandBuilder	_SkeletalCommandBuilder.addParameters(List<String> parameters) Deprecated.
_SkeletalCommandBuilder	_SkeletalCommandBuilder.addParameters(String[] parameters) Deprecated.
_SkeletalCommandBuilder	_SkeletalCommandBuilder.setEmail(String email) Deprecated.
_SkeletalCommandBuilder	_SkeletalCommandBuilder.setName(String name) Deprecated.

Methods in compbio.runner that return types with arguments of type _SkeletalCommandBuilder

Limit<_SkeletalCommandBuilder>	_SkeletalCommandBuilder.getLimit(String presetName) Deprecated.
LimitsManager<_SkeletalCommandBuilder>	_SkeletalCommandBuilder.getLimits() Deprecated.
CommandBuilder<_SkeletalCommandBuilder>	_SkeletalCommandBuilder.getParameters(Executable.ExecProvider provider) Deprecated.

Uses of _SkeletalCommandBuilder in compbio.runner._impl

Subclasses of _SkeletalCommandBuilder in compbio.runner._impl

class	BlastAll
class	Mcl
class	OB TODO this needs fixing! Executable does not work
class	PSIBlast
class	Ronn
class	RPSBlast