Difference between revisions of "SOCR EduMaterials AnalysesCommandLineFisherExact"
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== Introduction == | == Introduction == | ||
| − | In addition to the graphical user interfaces, via a web-browser, all [http://socr. | + | In addition to the graphical user interfaces, via a web-browser, all [http://socr.umich.edu/html/ana/ SOCR Analyses] allow command-line shell execution on local systems. |
==General Usage== | ==General Usage== | ||
| − | * Get the latest SOCR JAR files from the SOCR page (http://socr. | + | * Get the latest SOCR JAR files from the SOCR page (http://socr.umich.edu/html/jars/). |
* 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). | ||
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| − | {{translate|pageName=http://wiki. | + | {{translate|pageName=http://wiki.socr.umich.edu/index.php?title=SOCR_EduMaterials_AnalysesCommandLineFisherExact}} |
Latest revision as of 09:57, 5 March 2014
This page includes the information on how to access the Fisher Exact Test library via shell-based command-line interface on local machines. More information about other SOCR Analyses command-line interfaces is available here.
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.umich.edu/html/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).
Fisher Exact Test Usage
- Generic Setting:
java -cp [SOCRjar_location]/SOCR_core.jar:[SOCRjar_location]/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV [data_location]/f.txt
- Example: Edit a new file (FisherExactCSV.csh) using any editor and paste this inside (make sure the file has executable permissions). Some operating systems/platforms may require variants of this (C-shell) script.
#!/bin/csh
date
java -cp /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_core.jar:/
ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/SOCR_CSV_test_Scripts_Data/f.txt
date
exit
Example Input data files
One test datafile is included with the SOCR analyses command-line distribution (f.txt). The ASCII content of each of these is included below.
| f.txt | ||||
|---|---|---|---|---|
| 5.0 | 4.0 | |||
| 1.0 | 3.0 | |||
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