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-Constant Field Values

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-Contents

compbio.data.* -
compbio.engine.* -
compbio.metadata.* -
compbio.runner.* -

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-compbio.data.*

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compbio.data.msa.JABAService
-public static final String SERVICE_NAMESPACE "http://msa.data.compbio/01/01/2010/"
-public static final String V2_SERVICE_NAMESPACE "http://msa.data.compbio/01/12/2010/"
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compbio.data.msa.JABAService
-`public static final String`	`SERVICE_NAMESPACE`	`"http://msa.data.compbio/01/01/2010/"`
-`public static final String`	`V2_SERVICE_NAMESPACE`	`"http://msa.data.compbio/01/12/2010/"`

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compbio.data.sequence.ClustalAlignmentUtil
-public static final char gapchar 45
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compbio.data.sequence.ClustalAlignmentUtil
-`public static final char`	`gapchar`	`45`

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compbio.data.sequence.ScoreManager
-public static final String SINGLE_ENTRY_KEY "Alignment"
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compbio.data.sequence.ScoreManager
-`public static final String`	`SINGLE_ENTRY_KEY`	`"Alignment"`

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compbio.data.sequence.SMERFSConstraints
-public static final double DEFAULT_GAP_THRESHOLD 0.1
-public static final int DEFAULT_WINDOW_SIZE 7
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compbio.data.sequence.SMERFSConstraints
-`public static final double`	`DEFAULT_GAP_THRESHOLD`	`0.1`
-`public static final int`	`DEFAULT_WINDOW_SIZE`	`7`

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-compbio.engine.*
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compbio.engine.client.ConfExecutable<T>
-public static final String CLUSTER_TASK_ID_PREFIX "@"
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compbio.engine.client.ConfExecutable<T>
-`public static final String`	`CLUSTER_TASK_ID_PREFIX`	`"@"`

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compbio.engine.client.EnvVariableProcessor
-public static final String PATH "PATH"
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compbio.engine.client.EnvVariableProcessor
-`public static final String`	`PATH`	`"PATH"`

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compbio.engine.client.RunConfiguration
-public static final String rconfigFile "RunnerConfig.xml"
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compbio.engine.client.RunConfiguration
-`public static final String`	`rconfigFile`	`"RunnerConfig.xml"`

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compbio.engine.client.SkeletalExecutable<T>
-public static final String ERROR "error.txt"
-public static final String INPUT "input.txt"
-public static final String OUTPUT "result.txt"
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compbio.engine.client.SkeletalExecutable<T>
-`public static final String`	`ERROR`	`"error.txt"`
-`public static final String`	`INPUT`	`"input.txt"`
-`public static final String`	`OUTPUT`	`"result.txt"`

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compbio.engine.cluster.drmaa.ClusterSession
-public static final String JOBID "JOBID"
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compbio.engine.cluster.drmaa.ClusterSession
-`public static final String`	`JOBID`	`"JOBID"`

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compbio.engine.conf._Key
-public static final String DELIM "#"
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compbio.engine.conf._Key
-`public static final String`	`DELIM`	`"#"`

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compbio.engine.conf.DirectoryManager
-public static final String DELIM "#"
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compbio.engine.conf.DirectoryManager
-`public static final String`	`DELIM`	`"#"`

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compbio.engine.local.ExecutableWrapper
-public static final String PROC_ERR_FILE "procError.txt"
-public static final String PROC_OUT_FILE "procOutput.txt"
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compbio.engine.local.ExecutableWrapper
-`public static final String`	`PROC_ERR_FILE`	`"procError.txt"`
-`public static final String`	`PROC_OUT_FILE`	`"procOutput.txt"`

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-compbio.metadata.*
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compbio.metadata.PresetManager<T>
-public static final String LOCAL_ENGINE_LIMIT_PRESET "# LocalEngineExecutionLimit #"
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compbio.metadata.PresetManager<T>
-`public static final String`	`LOCAL_ENGINE_LIMIT_PRESET`	`"# LocalEngineExecutionLimit #"`

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-compbio.runner.*
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compbio.runner.Util
-public static final String SPACE " "
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compbio.runner.Util
-`public static final String`	`SPACE`	`" "`

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compbio.runner.conservation.AACon
-public static final String KEY_VALUE_SEPARATOR "="
-public static final String STAT_FILE "stat.txt"
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compbio.runner.conservation.AACon
-`public static final String`	`KEY_VALUE_SEPARATOR`	`"="`
-`public static final String`	`STAT_FILE`	`"stat.txt"`

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compbio.runner.disorder.Disembl
-public final double COILS_EXPECTATION_THRESHOLD 0.43
-public static final String KEY_VALUE_SEPARATOR " "
-public final double LOOPS_EXPECTATION_THRESHOLD 0.086
-public final double REM_EXPECTATION_THRESHOLD 0.5
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compbio.runner.disorder.Disembl
-`public final double`	`COILS_EXPECTATION_THRESHOLD`	`0.43`
-`public static final String`	`KEY_VALUE_SEPARATOR`	`" "`
-`public final double`	`LOOPS_EXPECTATION_THRESHOLD`	`0.086`
-`public final double`	`REM_EXPECTATION_THRESHOLD`	`0.5`

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compbio.runner.disorder.GlobPlot
-public static final String KEY_VALUE_SEPARATOR " "
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compbio.runner.disorder.GlobPlot
-`public static final String`	`KEY_VALUE_SEPARATOR`	`" "`

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compbio.runner.disorder.Jronn
-public static final String KEY_VALUE_SEPARATOR " "
-public static final String STAT_FILE "stat.txt"
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compbio.runner.disorder.Jronn
-`public static final String`	`KEY_VALUE_SEPARATOR`	`" "`
-`public static final String`	`STAT_FILE`	`"stat.txt"`

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compbio.runner.msa.ClustalO
-public static final String KEY_VALUE_SEPARATOR "="
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compbio.runner.msa.ClustalO
-`public static final String`	`KEY_VALUE_SEPARATOR`	`"="`

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compbio.runner.msa.ClustalW
-public static final String KEY_VALUE_SEPARATOR "="
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compbio.runner.msa.ClustalW
-`public static final String`	`KEY_VALUE_SEPARATOR`	`"="`

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compbio.runner.msa.Mafft
-public static final String KEY_VALUE_SEPARATOR " "
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compbio.runner.msa.Mafft
-`public static final String`	`KEY_VALUE_SEPARATOR`	`" "`

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compbio.runner.msa.Muscle
-public static final String KEY_VALUE_SEPARATOR " "
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compbio.runner.msa.Muscle
-`public static final String`	`KEY_VALUE_SEPARATOR`	`" "`

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compbio.runner.msa.Probcons
-public static final String KEY_VALUE_SEPARATOR " "
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compbio.runner.msa.Probcons
-`public static final String`	`KEY_VALUE_SEPARATOR`	`" "`

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compbio.runner.msa.Tcoffee
-public static final String KEY_VALUE_SEPARATOR "="
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compbio.runner.msa.Tcoffee
-`public static final String`	`KEY_VALUE_SEPARATOR`	`"="`

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