TubeTK/Build Instructions

Overview

TubeTK has been tested on Windows, OS X, and Linux.

• Process
  • Install dependencies
  • Download source
  • Configure using CMake
  • Build

Dependencies

Minimum Requirements

• CMake
• Git
• Subversion

The following third-party libraries will be downloaded and built automatically (via the cmake superbuild mechanism):

• JsonCpp
• Slicer Execution Model
• Insight Segmentation and Registration Toolkit (ITK)
• 3D Slicer fork of the Visualization Toolkit (VTK)

See the Dependencies page on GitHub for minimum versions and a complete list.

Using Binary Packages

• Fedora:

sudo yum install cmake git gcc-c++ jsoncpp-devel make mesa-libGL-devel subversion

• Red Hat Enterprise Linux:

sudo yum install cmake28 devtoolset-1.1-gcc-c++ git make mesa-libGL-devel subversion

• Ubuntu:

sudo apt-get install cmake git g++ libgl1-mesa-dev libjsoncpp-dev make subversion

Note: For Red Hat Enterprise Linux, first enable Extra Packages for Enterprise Linux (EPEL).

Download, Configure, and Build

You have two options:

1. Download, configure, and build manually

1a. Clone the Git repository

Windows, Linux, and OS X: Command-line Option

cd <where you want the top-level source directory to be>
git clone https://github.com/TubeTK/TubeTK TubeTK

Windows, Linux, and OS X: Using the GitHub gui

Follow the directions for cloning a repo to your machine

• On the right side of the page, you'll find a button to "Clone in Desktop". Click this.
• The GitHub app will open.
• Log in if it asks you to, and specify a convenient location on your computer for the project folder.

1b. Configure

Windows

mkdir %HOMEPATH%/TubeTK-Release
cd  %HOMEPATH%/TubeTK-Release
cmake -DCMAKE_BUILD_TYPE=Release ../TubeTK

Linux and OS X

• Fedora, Ubuntu, and OS X:

mkdir $HOME/TubeTK-Release
cd $HOME/TubeTK-Release
cmake -G"Unix Makefiles" -DCMAKE_BUILD_TYPE=Release ../TubeTK

• Red Hat Enterprise Linux:

mkdir $HOME/TubeTK-Release
cd $HOME/TubeTK-Release
cmake28 -G"Unix Makefiles" -DCMAKE_BUILD_TYPE=Release ../TubeTK

1c. Build

Windows

Microsoft Visual Studio

• Load the TubeTK solution file
  • Select File -> Open -> Project/Solution -> open TubeTK-Release/TubeTK.sln
• Perform the initial build using your compiler at the top-level of TubeTK-Release. This will update and build the libraries that TubeTK depends on (ex. VTK, ITK), and then build TubeTK.
  • Right click on the "ALL_BUILD" project and select "Build".
• Subsequent builds should be initiated in the subdir TubeTK-Release/TubeTK-build to save time. This will build TubeTK only. You may have to periodically build from the top-level of TubeTK-Release to get updates to the libraries that TubeTK depends on.
  • Right click on the "TubeTK" project and select "Build".

Linux and OS X

• Perform the initial build using your compiler at the top-level of TubeTK-Release. This will update and build the libraries that TubeTK depends on (ex. VTK, ITK), and then build TubeTK.

cd $HOME/TubeTK-Release
make

• Subsequent builds should be initiated in the subdir TubeTK-Release/TubeTK-build to save time. This will build TubeTK only. You may have to periodically build from the top-level of TubeTK-Release to get updates to the libraries that TubeTK depends on.

cd $HOME/TubeTK-Release/TubeTK-build
make

2. Have CTest do all of the work

THIS METHOD IS NOT WORKING AT THIS TIME - WE NEED TO UPDATE THE BUILD FILES MENTIONED BELOW.

SORRY FOR THE INCONVENIENCE - PLEASE USE THE MANUAL BUILD METHOD DESCRIBED ABOVE

This is the recommended approach for people who will be using and developing in TubeTK. It not only builds and tests TubeTK with minimal effort, but it also submits your build as an "experimental" on the TubeTK dashboard - this allows us to more easily help you debug errors during the build process:

• Download a ctest configuration file for TubeTK

Linux: TubeTK_InitialBuild_Linux.cmake

OS X:TubeTK_InitialBuild_Mac.cmake

Windows: TubeTK_InitialBuild_Windows.cmake

• Edit it to match your environment
  • Only the variables in the first portion of the file should be edited. They are clearly marked and self explanatory. Additional details are at TubeTK/Dashboard Scripts.
• Run ctest and submit an experimental dashboard

Fedora and Ubuntu:

ctest -S TubeTK_InitialBuild_Linux.cmake

Red Hat Enterprise Linux:

ctest28 -S TubeTK_InitialBuild_Linux.cmake

OS X:

ctest -S TubeTK_InitialBuild_Mac.cmake

Windows:

ctest -S TubeTK_InitialBuild_Windows.cmake

This will download the source code, configure it, build it, test it, and then submit the results to the TubeTK Dashboard.

Advanced

Using KWStyle

For introductory information, see: http://public.kitware.com/KWStyle/.

 git clone http://public.kitware.com/KWStyle.git $HOME/KWStyle
 mkdir $HOME/KWStyle-Release
 cd $HOME/KWStyle-Release
 cmake -DCMAKE_BUILD_TYPE=Release ../KWStyle
 make
 sudo make install

 cd $HOME/TubeTK-Release
 cmake -DTubeTK_USE_KWSTYLE=ON -DKWSTYLE_EXECUTABLE=/usr/local/bin/KWStyle .
 make
 make StyleCheck

Using a pre-existing ITK, JsonCpp, or VTK installation

You can also configure CMake variables to use an existing JsonCpp installation instead of an embedded version.

cd $HOME/TubeTK-Release
cmake -DUSE_SYSTEM_JSONCPP .

You can also configure CMake variables to use an existing ITK or VTK installation instead of an embedded versions. This is not recommended, because of inter-dependencies that require specific version of these libraries, and built using specific options, to be used.

• USE_SYSTEM_ITK: OFF
  • If "ON", then you can tell TubeTK to use an ITK build that is already present on your system (using the CMake variable ITK_DIR).
• USE_SYSTEM_VTK: OFF
  • If "ON", then you can tell TubeTK to use a VTK build that is already present on your system (using the CMake variable VTK_DIR). See the warning below.

• Dependency on VTK version and build options
  • Note that TubeTK relies on VTK from 3D Slicer (https://github.com/Slicer/VTK)
  • The 3D Slicer fork of VTK contains enhancements that have not yet made it into the VTK repository itself.