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java.lang.Objectsbrt.shell.proc.fba.PalssonSbmlReader
public class PalssonSbmlReader
This class is used to read SBML files downloaded directly from Dr. Bernhard Palsson's website.
Field Summary | |
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static java.lang.String |
NOT_PROVIDED
The string used to denote that a particular value was not provided in an SBML input file. |
Constructor Summary | |
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PalssonSbmlReader(java.lang.String sbmlFileName)
Constructs a new SBML file reader. |
Method Summary | |
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void |
writeFluxBounds(java.lang.String fluxBoundsFileName)
Writes the flux bounds contained in the SBML file to a file with the provided name. |
void |
writeFluxVector(java.lang.String fluxVectorFileName)
Writes the flux vector contained in the SBML file to a file with the provided name. |
void |
writeGenes(java.lang.String geneFileName)
Writes the genes contained in the SBML file to a file with the provided name. |
void |
writeProteins(java.lang.String proteinFileName)
Writes the proteins contained in the SBML file to a file with the provided name. |
void |
writeRxns(java.lang.String rxnFileName)
Writes the reactions contained in the SBML file to a file with the provided name. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public static final java.lang.String NOT_PROVIDED
Constructor Detail |
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public PalssonSbmlReader(java.lang.String sbmlFileName)
sbmlFileName
- the canonical name of the SBML file to be read.AbstractSbrtFile.getCanonicalName(String)
Method Detail |
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public void writeRxns(java.lang.String rxnFileName)
rxnFileName
- the name of the file to generated.public void writeGenes(java.lang.String geneFileName)
geneFileName
- the name of the file to generated.public void writeProteins(java.lang.String proteinFileName)
proteinFileName
- the name of the file to generated.public void writeFluxVector(java.lang.String fluxVectorFileName)
fluxVectorFileName
- the name of the file to generated.public void writeFluxBounds(java.lang.String fluxBoundsFileName)
fluxBoundsFileName
- the name of the file to generated.
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