Difference between revisions of "Tutorial - Getting Started"

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==Versions available:==
 
==Versions available:==
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Downloads are available for current versions of Windows, Linux and Macintosh OS-X.  Our primary development and testing platform is Windows XP.
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[[Download | Downloads]] are available for current versions of Windows, Linux and Macintosh OS-X.  Our primary development and testing platform is Windows XP.
  
  
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===Java:===
 
===Java:===
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geWorkbench requires that a version of the Sun Java Runtime Environment 5.0 or higher be installed on your computer.  (This is also known as JRE version 1.5).  The JRE is available at [http://java.sun.com/j2se/1.5.0/download.jsp J2SE 5.0].
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geWorkbench requires that a version of the Sun Java Runtime Environment 6.0 or higher be installed on your computer.  (This is also known as JRE version 1.6).  The JRE is available at [http://java.sun.com/javase/downloads/index.jsp java.sun.com].  However, the Windows and Linux versions of geWorkbench include the JRE in their download package, and the Macintosh supplies its own copy of the JRE.
  
 
===Memory:===
 
===Memory:===
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Testing of geWorkbench is done on machines with 1 GB of memory.  512 MB should be adequate for most geWorkbench modules.  Working with large datasets (100s of arrays) may require additional memory.
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Testing of geWorkbench is done on machines with at least 1 GB of memory.  Working with large datasets (100s of arrays) may require additional memory.
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In version 1.0.4, the Hierachical Clustering tutorial requires a machine with 1 GB of memory, and the Java heap size must be set to at least 450 MB.  This can be done in the file '''UILauncher.lax''' which is found in the application root directory of the InstallAnywhere packaged versions of geWorkbench.  Specifically, the following line in that file should be set as follows:
 
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lax.nl.java.option.java.heap.size.max=450678989
 
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==Installation:==
 
==Installation:==
  
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See the Download menu at left to obtain geWorkbench.  The self-installing file includes all currently available geWorkbench modules as well as several example data files.
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See the [[Download | Download]] menu at left to obtain geWorkbench.  The self-installing file includes all currently available geWorkbench modules as well as several example data files.
 
The download package is created using InstallAnywhere from ZeroG Software.
 
The download package is created using InstallAnywhere from ZeroG Software.

Latest revision as of 16:34, 10 June 2010

Home | Quick Start | Basics | Menu Bar | Preferences | Component Configuration Manager | Workspace | Information Panel | Local Data Files | File Formats | caArray | Array Sets | Marker Sets | Microarray Dataset Viewers | Filtering | Normalization | Tutorial Data | geWorkbench-web Tutorials

Analysis Framework | ANOVA | ARACNe | BLAST | Cellular Networks KnowledgeBase | CeRNA/Hermes Query | Classification (KNN, WV) | Color Mosaic | Consensus Clustering | Cytoscape | Cupid | DeMAND | Expression Value Distribution | Fold-Change | Gene Ontology Term Analysis | Gene Ontology Viewer | GenomeSpace | genSpace | Grid Services | GSEA | Hierarchical Clustering | IDEA | Jmol | K-Means Clustering | LINCS Query | Marker Annotations | MarkUs | Master Regulator Analysis | (MRA-FET Method) | (MRA-MARINa Method) | MatrixREDUCE | MINDy | Pattern Discovery | PCA | Promoter Analysis | Pudge | SAM | Sequence Retriever | SkyBase | SkyLine | SOM | SVM | T-Test | Viper Analysis | Volcano Plot


Versions available:

Downloads are available for current versions of Windows, Linux and Macintosh OS-X. Our primary development and testing platform is Windows XP.


Requirements:

Java:

geWorkbench requires that a version of the Sun Java Runtime Environment 6.0 or higher be installed on your computer. (This is also known as JRE version 1.6). The JRE is available at java.sun.com. However, the Windows and Linux versions of geWorkbench include the JRE in their download package, and the Macintosh supplies its own copy of the JRE.

Memory:

Testing of geWorkbench is done on machines with at least 1 GB of memory. Working with large datasets (100s of arrays) may require additional memory.

Installation:

See the Download menu at left to obtain geWorkbench. The self-installing file includes all currently available geWorkbench modules as well as several example data files. The download package is created using InstallAnywhere from ZeroG Software.

Retrieved from "http://wiki.c2b2.columbia.edu/workbench/index.php?title=Tutorial_-_Getting_Started&oldid=6311"