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Packages that use ResultsManager | |
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plug_in_example.kernel | |
sbrt.kernel | Provides interfaces to define processes. |
sbrt.kernel.fba.proc | Provides classes and interfaces for executing Flux Balance Analysis processes. |
sbrt.kernel.io | Provides classes and interfaces used to perform kernel-level I/O. |
sbrt.kernel.math.algebra.proc | Provides classes and interfaces for executing algebra-related processes. |
sbrt.kernel.math.comb.proc | Provides classes and interfaces for performing combinatorial analysis-related processes. |
sbrt.kernel.math.geom.proc | Provides classes and interfaces for performing geometry-related processes. |
sbrt.kernel.math.graph_theory.proc | Provides classes and interfaces for performing graph theoretical processes. |
sbrt.kernel.math.stat.proc | Provides classes and interfaces for performing statistical processes. |
sbrt.kernel.utilities.proc | Provides classes and interfaces for performing utility processes. |
sbrt.shell.io | Provides classes and interfaces for reading and writing files. |
sbrt.shell.io.fba | Provides classes and interfaces for reading and writing files relevant to Flux Balance Analysis. |
sbrt.shell.mng | Provides classes and interfaces for creating process managers. |
sbrt.shell.mng.fba | Provides classes and interfaces for creating Flux Balance Analysis process managers. |
Uses of ResultsManager in plug_in_example.kernel |
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Methods in plug_in_example.kernel with parameters of type ResultsManager | |
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void |
GreetingProcess.run(ResultsManager<java.lang.String> resultsManager)
Adds a randomly generated greeting to the provided results manager. |
Uses of ResultsManager in sbrt.kernel |
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Methods in sbrt.kernel with parameters of type ResultsManager | |
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void |
KernelProcess.run(ResultsManager<T> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
Uses of ResultsManager in sbrt.kernel.fba.proc |
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Methods in sbrt.kernel.fba.proc with parameters of type ResultsManager | |
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void |
CdHarFluxVectorProcess.run(ResultsManager<CdHarFluxComp.Results> resultsManager)
Generates the specified number of random flux vectors and adds each to the provided results manager. |
void |
SvCdHarFluxVectorProcess.run(ResultsManager<CdHarFluxComp.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
CycleIdProcess.run(ResultsManager<DoubleMatrix<?,java.lang.String>> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
ExtremeCurrentProcess.run(ResultsManager<DoubleMatrix<?,java.lang.String>> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
CvFbaOptProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
CatalystDeletionProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
RxnDeletionProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
CvRxnDeletionProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
FbaOptProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Computes the optimal value of the current objective function and adds the results to the provided results manager via its addData(Object) method. |
void |
CvObjectiveFunctionProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
ObjFunAnalysis.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
CvCatalystDeletionProcess.run(ResultsManager<FbaOptimizer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
FluxActivityProcess.run(ResultsManager<FluxActivityProcess.Results> resultsManager)
Iterates thru the flux vector source set via setFluxVectorSource(Iterable) , counts the number of active and
inactive fluxes in each vector, and adds the results of each to the
provided results manager. |
void |
RedundRxnRemoverProcess.run(ResultsManager<Fluxome> resultsManager)
Adds the information gathered about the fluxome to the provided results manager. |
void |
FluxPlasticityProcess.run(ResultsManager<FluxPlasticityProcess.Results> resultsManager)
Iterates thru the flux interval source set via setFluxRangeSource(Iterable) , computes the flux plasticity
measures, and adds the results of each to the provided results manager. |
void |
InitialPointGenerator.run(ResultsManager<InitialPointComputer.Results> resultsManager)
Generates an initial point and adds it to the provided results manager. |
void |
SvInitialPointProcess.run(ResultsManager<InitialPointComputer.Results> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
RandomObjectiveGenerator.run(ResultsManager<LinearComb<java.lang.String>> resultsManager)
Generates random objective functions and adds them to the provided results manager. |
void |
FbaSolverProcess.run(ResultsManager<LinearSystemSolution<java.lang.String>> resultsManager)
Solves Sv = 0 and adds the result to the provided manager. |
void |
RevRxnBreakerProcess.run(ResultsManager<java.util.Map<java.lang.String,ChemRxn>> resultsManager)
Breaks the reversible reactions supplied to this process and adds the result to the provided manager. |
void |
FluxIntervalProcess.run(ResultsManager<java.util.Map<java.lang.String,Interval>> resultsManager)
Computes the flux intervals of the reactions with the current names and adds them to the provided results manager. |
void |
RandConstGeneratorV1.run(ResultsManager<java.util.Map<java.lang.String,Interval>> resultsManager)
Generates sets of random flux constraints and adds them to the provided results manager. |
void |
CvFluxIntervalProcess.run(ResultsManager<java.util.Map<java.lang.String,Interval>> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
void |
FluxCapProcess.run(ResultsManager<java.util.Map<java.lang.String,java.util.Set<LinearComb<java.lang.String>>>> resultsManager)
Computes the flux caps and adds the result to the provided manager. |
void |
NetworkInfoProcess.run(ResultsManager<NetworkInfoProcess.Results<F>> resultsManager)
Adds the information gathered about the fluxome to the provided results manager. |
void |
FluxomeReducerProcess.run(ResultsManager<T> resultsManager)
Runs this process and adds the generated results to the provided results manager via its addData(Object) method. |
Uses of ResultsManager in sbrt.kernel.io |
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Classes in sbrt.kernel.io that implement ResultsManager | |
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class |
AbstractResultsManager<R>
This class is a skeleton implemenation of ResultsManager. |
class |
ListResultsManager<R>
This class is used to store a list of results that can be easily retrieved. |
class |
SingleRm<R>
This class is used to store a single result that can be easily retrieved. |
Uses of ResultsManager in sbrt.kernel.math.algebra.proc |
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Methods in sbrt.kernel.math.algebra.proc with parameters of type ResultsManager | |
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void |
LinearSolverProcess.run(ResultsManager<LinearSystemSolution<V>> resultsManager)
Solves the system of linear equations and adds the solution to the provided results manager. |
void |
VectorIntersection.run(ResultsManager<java.util.Map<K,V>> resultsManager)
and adds the results to the provided results manager. |
Uses of ResultsManager in sbrt.kernel.math.comb.proc |
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Methods in sbrt.kernel.math.comb.proc with parameters of type ResultsManager | |
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void |
SingleElementUnionProc.run(ResultsManager<java.util.Set<java.util.Set<E>>> resultsManager)
Computes the single-element unions of the provided collection of sets, and adds the results to the provided results manager. |
void |
StrictSingleElementUnionProc.run(ResultsManager<java.util.Set<java.util.Set<E>>> resultsManager)
Computes the strict single-element unions of the provided collection of sets, and adds the results to the provided results manager. |
Uses of ResultsManager in sbrt.kernel.math.geom.proc |
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Methods in sbrt.kernel.math.geom.proc with parameters of type ResultsManager | |
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void |
CdHarProcess.run(ResultsManager<CdHarComp.Results> resultsManager)
Adds random points to the provided results manager. |
Uses of ResultsManager in sbrt.kernel.math.graph_theory.proc |
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Methods in sbrt.kernel.math.graph_theory.proc with parameters of type ResultsManager | |
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void |
CycleIdProcess.run(ResultsManager<Path<N>> resultsManager)
Adds to the provided results manager each identified cycle in the current graph. |
void |
PathIdProcess.run(ResultsManager<Path<N>> resultsManager)
Adds to the provided results manager each computed path in the current graph. |
Uses of ResultsManager in sbrt.kernel.math.stat.proc |
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Methods in sbrt.kernel.math.stat.proc with parameters of type ResultsManager | |
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void |
MwUAnalysis.run(ResultsManager<MannWhitneyResults> resultsManager)
Computes the Mann-Whitney U statistic of the samples A and B, and adds the results to the provided results manager. |
void |
CorrelationAnalysis.run(ResultsManager<T> resultsManager)
Computes the correlation statistic between the x and y values, and adds the results to the provided results manager. |
void |
MultipleCorrelationAnalysis.run(ResultsManager<T> resultsManager)
Computes the correlation statistic between the x and y values, and adds the results to the provided results manager. |
Uses of ResultsManager in sbrt.kernel.utilities.proc |
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Methods in sbrt.kernel.utilities.proc with parameters of type ResultsManager | |
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void |
VectorComparison.run(ResultsManager<java.util.Map<V,java.lang.Double>> resultsManager)
Adds to the provided results manager the variables (keys) whose intervals (values) are unequal within the provided tolerance. |
void |
VariableParticipation.run(ResultsManager<java.util.Map<V,java.util.List<E>>> resultsManager)
Adds to the provided results manager a map of variables mapped to a list of mathematical expressions in which they participate. |
void |
IntervalComparison.run(ResultsManager<java.util.Set<IntervalComparer.Diff<V>>> resultsManager)
Adds to the provided results manager the variables (keys) whose intervals (values) are not considered equivalent. |
Uses of ResultsManager in sbrt.shell.io |
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Subinterfaces of ResultsManager in sbrt.shell.io | |
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interface |
MapOutputFile<K,V>
This interface is used to represent output files that maps can be written to. |
interface |
MapTextOutputFile<K,V>
This interface is used to represent output files that maps can be written to as text. |
interface |
OutputFile<T>
This interface is used to represent output files. |
Classes in sbrt.shell.io that implement ResultsManager | |
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class |
AbstractMapOutputFile<K,V>
This abstract class is a skeleton implementation of MapTextOutputFile. |
class |
ComoFile<K,V>
This class is used to write maps to text files in a column-oriented way. |
class |
MultiOutputFiles<F extends OutputFile<R>,R>
This class is used to create multiple output files. |
class |
RomoFile<K,V>
This class is used to write maps to text files in a row-oriented way. |
class |
SerializedOutputFile<E>
This class is used to write serialized objects to output files. |
class |
SmoFile<K,V>
This class is used to write serialized maps to output files. |
class |
TextOutputFile<T>
This class is used to represent output files containing plain text. |
Uses of ResultsManager in sbrt.shell.io.fba |
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Subinterfaces of ResultsManager in sbrt.shell.io.fba | |
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interface |
FbaOptOutputFile<F extends Fluxome>
This interface is used to represent FBA optimization output files. |
Classes in sbrt.shell.io.fba that implement ResultsManager | |
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class |
ColumnOrFbaOptOutputFile<F extends Fluxome>
This class is used to write column-oriented output files containing FBA optimization data. |
class |
RowOrFbaOptOutputFile<F extends Fluxome>
This class is used to write row-oriented output files containing FBA optimization data. |
class |
SerFbaOptOutputFile<F extends Fluxome>
This class is used to write output files containing FBA optimization data as serialized maps. |
Uses of ResultsManager in sbrt.shell.mng |
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Methods in sbrt.shell.mng with parameters of type ResultsManager | ||
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static void |
AbstractProcessManager.closeRm(ResultsManager<?> rm,
java.io.PrintWriter out)
Closes the provided file and prints a descriptive message to the provided print writer. |
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static
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AbstractProcessManager.runProcess(MonitoredProcess<T> process,
ResultsManager<T> resultsManager,
java.io.PrintWriter out)
Runs the provided process using the provided results manager and prints descriptive progress messages to the provided print writer. |
Uses of ResultsManager in sbrt.shell.mng.fba |
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Classes in sbrt.shell.mng.fba that implement ResultsManager | |
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protected static class |
ExtremeCurrentManager.Rm
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