© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.1 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.1© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
1
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Enhancing Spotfire with the Power of R
Charles Roosen (Mango Solutions)
Difei Luo (TIBCO Software)
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.2 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.2© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
2
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Overview
What is Spotfire? The Spotfire Platform
The Spotfire SDK
R Extensions for Spotfire Motivation
Extension Types
Implementation Details
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.3 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.3© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
3
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
The Spotfire Platform
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.4 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.4© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
4
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
TIBCO Spotfire Enterprise Analytics overview
AnalystsAnalysts
Business UsersBusiness Users
IT & Developers
IT & Developers
Data Integration
SecurityIntegration
AppIntegration
PlatformExtensibility
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.5 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.5© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
5
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
TIBCO Spotfire
Professional – In-memory interactive analytics
Explore data with multiple, linked visualizationsFrom simple Bar charts to powerful statistics at the
tip of your fingers
Instantly share any analysis
No separate publishing step
Auto-generated dynamic filters
Real-time, in-memory filtering on any field
Intuitive, user-driven interfaceCompletely interactive user
experience
Load data from multiple sourcesODBC/OleDB access, TS As
Information Links, Excel Spreadsheets, flat data files, …
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.6 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.6© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
6
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
TS Enterprise Analytics – Platform Overview
CL
IEN
TS
SE
RV
ER
S
Zero Install In-Memory Engine
Web Player Enterprise Player Professional
In-Memory Engine
Web Player Server
Administration & Integration
Spotf ire Server
Developer
IT / DBA
Development,Solutions,Integration,
Statistical Programming
Computation Engine
S+ Server
Real-TimeConnectivity
Event Processing
Server
Managers, Consumers,Executives
AnalystsPower UsersStatisticians
AnalystsPower UsersStatisticians
Managers, Consumers,Executives
Statisticians
Computation Engine
Miner S+
Developer
DA
TA
SO
UR
CE
S
DataStreams
Data at rest Data in motion
RelationalDatabases
SAP BISAP BW
SAP ERPSAP R/3
SiebelOracle
eBusinessSalesforce
*.xls**.mdb…etc
*.csv*.txt…etc
*.xml ,customsources
WebServices
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.7 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.7© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
7
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Demo: Spotfire
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.8 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.8© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
8
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
The Spotfire SDK
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.9 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.9© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
9
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
What is the Spotfire SDK?
The TIBCO Spotfire platform has a software development kit (SDK) for configuring, automating, and extending the platform.
The SDK is used to create custom TIBCO Spotfire Extensions.
Extensions add features that from the end users perspective are virtually indistinguishable from the built-in features.
Extensions are implemented in C# using Visual Studio Well documented API’s
Well designed architecture
Good examples on the Spotfire Technology Network
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.10 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.10© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
10
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Extension Types
TIBCO Spotfire Extension types include: Data Reader: Import data from custom file, database, and web services data
sources
Data Writer: Export data to custom file, database, and web services data sources
Calculation: Add custom aggregation, expression function, and statistical methods that automatically re-execute on data update events
Dialog Tool: Prompt users for input into custom application and document-level automation jobs
Control Panel: Collect user input from and display feedback to an always available custom control panel
Visualization Panel: Display custom charts, plots and other forms of presentation based on the current set of filtered and marked data
Automation Interface: Send and receive properties, events, and commands to and from an external application
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.11 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.11© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
11
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
R Extensions for Spotfire
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.12 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.12© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
12
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Motivation
R has a wealth of statistical techniques of value to Spotfire users
R core features
Bioconductor
PK modeling
Focus is on using R for statistical computation R does the computation
Spotfire does the user interface, graphics, reporting, and automation
Why not just use S+? R has functionality not available for S+, e.g. Bioconductor
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.13 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.13© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
13
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Extensions Implemented
Open R Data File Load the first object in an “RData” file as a data.frame
Open R Script File Execute an R script file creating a data.frame
Open From R Expression Execute a one-liner expression creating a data.frame
R Column Calculation Execute an R expression that creates a column
R Custom Expression Execute an R expression computing a summary such as “mean()” or “mad()”
Create and Manage General R Calculations Execute a block of R code creating a table
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.14 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.14© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
14
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Demo: R Extensions
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.15 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.15© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
15
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Implementation Details
General approach Spotfire writes data to a tab-delimited file
R reads the data, does some processing, and writes results to a tab-delimited file
Spotfire reads the tab-delimited file
The C# code On the C# side, most of the code is somewhat generic code for invoking some
general process and communicating to it via text files
The only R-specific code is that related to what “Process” is invoked
The R code A general R template script handles the data exchange and errors
Each type of extension has an R script, e.g. “Create Column”
Varying values such as file names or R expressions are inserted into the script as “spotfire.parameters”
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.16 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.16© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
16
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
C# Process Code
File.WriteAllText(generatedScriptFile, masterScript);
string args = string.Format("CMD BATCH {0} {1} {2}", batchOptions,
scriptFileName, stdoutFileName);
string rExecPath = RCalculationUtilities.GetRExecutableFilePath();
ProcessStartInfo info = new ProcessStartInfo(rExecPath, args);
info.WorkingDirectory = sessionDir;
info.WindowStyle = ProcessWindowStyle.Hidden;
try {
using (Process rProc = Process.Start(info)) {
rProc.WaitForExit();
if (rProc.ExitCode > 1) {
string errorMsgFileName = Path.Combine(sessionDir,
"errormsg.txt");
if (File.Exists(errorMsgFileName)) {
errorMsg = File.ReadAllText(errorMsgFileName);
}
}
}
}
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.17 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.17© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
17
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
R Master Template
# If an error occurs, quit with a non-zero status code
options(error = expression({{cat(geterrmessage(), file="errormsg.txt");q(status=100)}}))
# Parameters for passing settings other than data to R.
spotfire.parameters <- {1}
# Load data
spotfire.inputFilename <- "{2}"
spotfire.data <- read.delim(spotfire.inputFilename, check.names = FALSE)
# BEGIN User defined script
{0}
# END User defined script
# Save results
spotfire.outputFilename <- "{3}"
write.table(spotfire.results, file = spotfire.outputFilename, sep = "\t", na = "", row.names = FALSE)
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.18 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.18© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
18
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
R Extension Scripts
## R objects used:
##
## spotfire.data: data.frame passed from Spotfire to R
## spotfire.parameters: named character vector of parameters
## spotfire.results: data.frame passed from R to Spotfire
##
## Note: Error and special-case handling code left out for space reasons
# Example 1: Load the data from an Rdata file
spotfire.results <- get(load(file = spotfire.parameters["FilePath"])[1])
# Example 2: Execute an expression creating a data.frame
expr <- spotfire.parameters["DataFrameCreationExpression"]
spotfire.results <- eval(parse(text=expr))
# Example 3: Execute an expression creating a column
expr <- spotfire.parameters["CreateColumnExpression"]
spotfire.results <- with(spotfire.data, eval(parse(text=expr)))
© 2006 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.19 © 2005 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.19© 2008 TIBCO Software Inc. All Rights Reserved. Confidential and Proprietary.
19
____ __ ____ _____ ____ ______ _____ _____ ____ _____
Click to edit Master text stylesSecond levelThird level
Summary
Spotfire is a useful tool for interactive data visualization
R provides rich computational capabilities for Spotfire users
The Spotfire SDK makes it easy to integrate the two
Simple communication via text files and a child process works pretty well