- failed - Variable in class compbio.stat.servlet.ServiceTestResult
-
- failed - Variable in class compbio.stat.servlet.util.Totals
-
- FAILED - Static variable in class compbio.ws.client.WSTester
-
Status strings
- fasta4mafft - Static variable in class compbio.engine.client.EnvVariableProcessor
-
- fastaAlignment - Static variable in class compbio.ws.client.WSTester
-
- fastaInput1record - Static variable in class compbio.ws.client.WSTester
-
- fastaInput2records - Static variable in class compbio.ws.client.WSTester
-
Test sequences to be used as input for WS
- FastaReader - Class in compbio.data.sequence
-
Reads files with FASTA formatted sequences.
- FastaReader(String) - Constructor for class compbio.data.sequence.FastaReader
-
Header data can contain non-ASCII symbols and read in UTF8
- FastaReader(InputStream) - Constructor for class compbio.data.sequence.FastaReader
-
This class will not close the incoming stream! So the client should do
so.
- fastaRNAAlignment - Static variable in class compbio.ws.client.WSTester
-
- FastaSequence - Class in compbio.data.sequence
-
A FASTA formatted sequence.
- FastaSequence() - Constructor for class compbio.data.sequence.FastaSequence
-
- FastaSequence(String, String) - Constructor for class compbio.data.sequence.FastaSequence
-
Upon construction the any whitespace characters are removed from the
sequence
- fastaSequences - Variable in class compbio.data.msa.jaxws.Align
-
- fastaSequences - Variable in class compbio.data.msa.jaxws.Analize
-
- fastaSequences - Variable in class compbio.data.msa.jaxws.CustomAlign
-
- fastaSequences - Variable in class compbio.data.msa.jaxws.CustomAnalize
-
- fastaSequences - Variable in class compbio.data.msa.jaxws.PresetAlign
-
- fastaSequences - Variable in class compbio.data.msa.jaxws.PresetAnalize
-
- file - Variable in exception compbio.data.sequence.UnknownFileFormatException
-
- file - Variable in class compbio.engine.FilePuller
-
- FilePuller - Class in compbio.engine
-
- FilePuller(String, int) - Constructor for class compbio.engine.FilePuller
-
- FilePuller(String) - Constructor for class compbio.engine.FilePuller
-
- files - Variable in class compbio.stat.collector.JobDirectory
-
- finish - Variable in class compbio.stat.collector.JobStat
-
- FIRST - Static variable in class compbio.engine.client.CommandBuilder.Parameter
-
- floatP - Static variable in class compbio.data.sequence.RNAStructReader
-
- Fold - Class in compbio.data.msa.jaxws
-
- Fold() - Constructor for class compbio.data.msa.jaxws.Fold
-
- fold(List<FastaSequence>, ConfiguredExecutable<T>, Logger, String, Limit<T>) - Static method in class compbio.ws.server.WSUtil
-
- FoldResponse - Class in compbio.data.msa.jaxws
-
- FoldResponse() - Constructor for class compbio.data.msa.jaxws.FoldResponse
-
- formatTime(String) - Method in class compbio.engine.cluster.drmaa.StatisticManager
-
Convert grid engine time format End time: 1250701672.0000 to a readable
time representation as defined in Util.dataf
- freeEnergyP - Static variable in class compbio.data.sequence.RNAStructReader
-
- freqP - Static variable in class compbio.data.sequence.RNAStructReader
-
- from - Variable in class compbio.data.sequence.Range
-
- furtherDetails - Variable in class compbio.metadata.Option
-
- future - Variable in class compbio.engine.local.LocalRunner
-