SOCR EduMaterials AnalysesCommandLine
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* The command-line interface to SOCR Analyses generally uses '''EXAMPLE 1''' from the list of example data files for the corresponding analysis. | * The command-line interface to SOCR Analyses generally uses '''EXAMPLE 1''' from the list of example data files for the corresponding analysis. | ||
* All Input files are ASCII (see examples within each of the specific analyses). | * All Input files are ASCII (see examples within each of the specific analyses). | ||
| - | * a '''-h''' flag at the end of the command-line indicates that the first row in all ASCII input data files is a '''HEADER''' row (so it's not interpreted as data) | + | * a '''-h''' flag at the end of the command-line indicates that the first row in all ASCII input data files is a '''HEADER''' row (so it's not interpreted as data). |
| + | * When running large Java jobs on Grid architectures or when submitting jobs via ''qsub'', the following specification to request additional memory may be useful to avoid ''OutOfMemoryExceptions'': ''h_vmem=4.5G'' | ||
| + | : <code>qsub -q short.q -t 1:12 -l h_vmem=4.5G,h_stack=10M VolumeMultipleRegression_FA.tcsh</code>. | ||
| + | |||
===Analysis-specific Usage=== | ===Analysis-specific Usage=== | ||
Revision as of 21:28, 24 June 2009
This page includes the information on how to access the SOCR Analyses libraries for statistical computing via shell-based command-line interface on local machines. More information about SOCR Analyses is available here.
Contents |
Introduction
In addition to the graphical user interfaces, via a web-browser, all SOCR Analyses allow command-line shell execution on local systems.
General Usage
- Get the latest SOCR JAR files from the SOCR page (http://socr.ucla.edu/htmls/jars/).
- The command-line interface to SOCR Analyses generally uses EXAMPLE 1 from the list of example data files for the corresponding analysis.
- All Input files are ASCII (see examples within each of the specific analyses).
- a -h flag at the end of the command-line indicates that the first row in all ASCII input data files is a HEADER row (so it's not interpreted as data).
- When running large Java jobs on Grid architectures or when submitting jobs via qsub, the following specification to request additional memory may be useful to avoid OutOfMemoryExceptions: h_vmem=4.5G
-
qsub -q short.q -t 1:12 -l h_vmem=4.5G,h_stack=10M VolumeMultipleRegression_FA.tcsh.
Analysis-specific Usage
- SOCR_EduMaterials_AnalysesCommandLineAnovaOneWay
- SOCR_EduMaterials_AnalysesCommandLineAnovaTwoWay
- SOCR_EduMaterials_AnalysesCommandLineChiSquareContingencyTable
- SOCR_EduMaterials_AnalysesCommandLineChiSquareModelFit
- SOCR_EduMaterials_AnalysesCommandLineDichotomousProportion
- SOCR_EduMaterials_AnalysesCommandLineFisherExact
- SOCR_EduMaterials_AnalysesCommandLineFlignerKilleen
- SOCR_EduMaterials_AnalysesCommandLineKolmogorovSmirnoff
- SOCR_EduMaterials_AnalysesCommandLineMultiRegression
- SOCR_EduMaterials_AnalysesCommandLineOneT
- SOCR_EduMaterials_AnalysesCommandLineTwoIndependentFriedman
- SOCR_EduMaterials_AnalysesCommandLineTwoIndependentKruskalWallis
- SOCR_EduMaterials_AnalysesCommandLineTwoIndependentTest
- SOCR_EduMaterials_AnalysesCommandLineTwoIndependentWilcoxon
- SOCR_EduMaterials_AnalysesCommandLineTwoPairedSignedTest
- SOCR_EduMaterials_AnalysesCommandLineTwoPairedT
- SOCR_EduMaterials_AnalysesCommandLineTwoPairSignedRank
- SOCR_EduMaterials_AnalysesCommandLineSimpleRegression
Specific Volumetric Analyses
- SOCR_EduMaterials_AnalysesCommandLineVolumeMultipleRegression
- SOCR_EduMaterials_AnalysesCommandLineVolume1Sample_T_test
- SOCR_EduMaterials_AnalysesCommandLineVolume2Samples_T_test
- SOCR_EduMaterials_AnalysesCommandLineFDR_Correction
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