This article describes how to get started with SeqAn on Mac OS X using XCode.
That folder contains the.pkg file to install Xcode. Mac OS X (10.4) More Less. Feb 26, 2006 7:13 PM View answer in context. Question marked as ★ Helpful. Xcode Server supports two popular source control systems: Git and Subversion. On your development Mac, you write the source code and push it to a source code repository. This repository can be hosted on a remote server (Git or Subversion) or in OS X Server (Git only). The bot pulls your latest source code whenever it performs an integration.
We assume that you want to use MacPorts for installing some dependencies (MacPorts is a package management system that easily allows you to install Unix software on OS X).Of course, if you want to use a different way for installing the dependencies (e.g. using Homebrew) then you are free to do so.
First, you have to install the Apple Xcode via Apple Developer or preferably Xcode via the Mac App Store.
After having done so you also need to install the Command Line Tools.Open Xcode, go to Xcode>Preferences... or simply press ⌘ to open the preferences. Switch to the Downloads tab.In the shown table you will find the Command Line Tools.Click on Install to install them.
Warning
If you already had Xcode installed and you updated to Xcode 4.3 it is likely that xcode-select is not pointing to the new Xcode location.
To make sure you can properly work with Xcode 4.3 please open your Terminal and type:
The command should output /Applications/Xcode.app/Contents/Developer.If it doesn’t please note down the actual output (for backup purpose) and type in:
This will configure xcode-select properly and make it work with SeqAn.
Warning
With the current MacPort version of CMake it is no more possible to open sub projects.Either open only the root project seqan.xcodeproj or install our patched version of CMake instead.
Note: The package installs the binary at /usr/usr/bin/cmake.Please add the following line to your ~/.profile file:
After installing the Xcode SDK, please install MacPorts following these instructions.To check that the MacPorts install was successful, enter the following on your shell.If the port program is found then you can go on.
Next, install Git using the port command.
There is a problem with the current version of CMake. Please readProblem with CMake box above and either install our patched versionof CMake (see attachments) or the current MacPort version which has aproblem with sub projects:
Important
In the following we describe the easiest way to get up and running with SeqAn.This is especially recommended for novel users working through the tutorials in the beginning.If you are planning to contribute to SeqAn at any point, you need to read the SeqAn Git Workflow instructions first.This manual will guide you through the SeqAn workflow required to submit bug-fixes and new features.
Go to the directory you want to keep your SeqAn install in (e.g. Development in your home folder).
Then, use git to retrieve the current SeqAn source-base:
You can now find the whole tree with the SeqAn library and applications in $HOME/Development/seqan-src.
Tip
By default git creates a local branch pointing to the stable master branch.This branch is only updated when hot fixes are applied or a new release is published.
If you want to have access to regular updates and new features you can switch to the develop branch of SeqAn:
For more help on git, please read the documentation githelp and consult the homepage Git.
Warning
Note that the state of develop is not guaranteed to be stable at any time.
Next, we will use CMake to create an Xcode project for building theapplications, demo programs (short: demos), and tests. For this, wecreate a separate folder seqan-build on the same level as thefolder seqan-src.
The resulting directory structure will look as follows.
Within the build directoryxcode, we call CMake to generateXcode project files.
This will generate several Xcode project files in xcode, namely forthe SeqAn applications, demos, and tests.
Now, open the project for the applications:
Xcode starts and will look like this:
Now we are ready to compile and run our first application.For this, please choose the target razers2 in the top left corner of your Xcode application.When selected click on Run just left to where you chose the target.
Optionally, we could also use “ALL_BUILD” instead of “razers2”.However, this can take a long time and is not really necessary.
After having compiled and run razers2 your Xcode should display razers2‘s output in the bottom right area.
Now it is time to write your first little application in SeqAn.Go to the demos folder in the seqan-src directory and create a new folder with the same name as your username.In this tutorial we use seqan_dev as the username.Create a new cpp file called hello_seqan.cpp
Now, we go back into the build directory and call CMake again to make it detect the added app.
Tip
When and where do you have to call CMake?
CMake is a cross-platform tool for creating and updating build files (IDE projects or Makefiles).When you first create the build files, you can configure things such as the build mode or the type of the project files.
Whenever you add a new application, a demo or a test or whenever you make changes to CMakeLists.txt you need to call CMake again.Since CMake remembers the settings you chose the first time you called CMake in a file named CMakeCache.txt, all you have to do is to switch to your debug or release build directory and call “cmake.” in there.
Do not try to call “cmake.” from within the seqan-src directory but only from your build directory.
Select the file /Sources/demo_seqan_dev_hello_seqan/SourceFiles/hello_seqan.cpp in Xcode and open it:
Replace its contents with the following:
Install Tree For Mac Os X Using Xcode Install
Afterwards, you select the run target accordingly and compile and run your application by clicking on the Run button on the very top left corner in Xcode.
On completion, you should see the following output:
Congratulations, you have successfully created your first application within the SeqAn build system with Xcode!
As a next step, we suggest the following:
Download Xcode 11 For Mac
- For the tutorial, using the SeqAn build system is great!If you later want to use SeqAn as a library, have a look at Integration with your own Build System.
- If you plan to contribute to SeqAn, please read the following document: SeqAn Git Workflow.