The latest version of BEAST can always be found here: Installing JAVA To run BEAST on Mac OS X, you will need to have installed. Older versions of Mac OS had Java installed by default but this is no longer the case. BEAST currently requires at least version 6 of Java and this can still be installed as an optional package from Apple. Alternatively, you can install the latest version of Java which is distributed free. The former option is easier but the latest Java may give slightly better performance.

Installing Apple Java 6 You can download the ‘legacy’ Java 6 from here:. This will download an installer which will install Java and you are ready to go (you won’t need to restart the machine). Installing Oracle Java 8 To get the latest version of Java you will need to download the Java JDK from. Download and install the ‘JRE’ - this is the Java Runtime Environment. If you want to compile Java code you can install the JDK (Java Development Kit) instead.

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Once installed, you will automatically get updates to the latest version. Warning: Do not install the Java software offered on the website.

If the Java application does not relaunch, manually relaunch so you can take advantage of the latest Java. If you choose Skip This Version, but later decide to check for an update, you can launch the Java Control Panel by clicking the Java icon in System Preferences. Java for Mac OS X 10.6 Update 17 delivers improved security, reliability, and compatibility by updating Java SE 6 to 1.6.0_65. This update enables per-website control of the Java plug-in within Safari 5.1.9 or later.

This will install java only as a plug in to your web browser. This version of Java will not be able to run BEAST. The Mac version of BEAST is not yet compatible with Java 10. Please use Java 8 or 9. Installing BEAST Double-clicking the disk image file will open the a virtual ‘disk’ in a Finder window.

At this point the applications are still on the ‘disk’ created by the disk image. We suggest that you drag the entire folder into your Applications folder (either the main Applications folder or the one in your user folder). You can drag the folder by clicking, holding and then dragging the little white icon at the top of the disk image finder window. Mac OS X security When running any of the applications in the BEAST package for the first time you may see a security dialog box.

This is Mac OS X’s security protecting your system from unknown software: The Mac OS X security dialog. By default it only allows you to run software from developers registered with Apple. For more information about this, click the question mark button.

Rather than double-clicking to run the application for the first time, you can control-click (or right-click) on the application icon and select Open. This will bring up a similar dialog box to the one about but this time it will have an Open button which will override the security for this application only. You will only need to do this the first time you open an application but you will need to do it individually for each of the applications in the BEAST package. You can then drag the icons into your Dock if you want quick access to them. BEAGLE acceleration library We also strongly recommend that you install the BEAGLE library to accelerate BEAST’s computation (indeed some analyses are not possible without BEAGLE).

Installing a command-line version of BEAST Mac OS X is particularly popular in computational biology because it is built upon a UNIX operating system which gives it access to a wide range of scientific software. BEAST can also be installed to run within the command-line environment provided by the Mac OS X Terminal.app. Homebrew package manager for Mac OS X The above instructions will also work to install BEAST as a command-line tool in Mac OS X. However, the recommended way of installing BEAST for use in the Mac OS X Terminal is to use the Homebrew package manager. If you use the Mac OS X command-line you are probably familiar with.

This is a simple and convenient way of installing and updating command-line software on the Mac. Provides a huge range of science and bioinformatics software. To install BEAST using HomeBrew type.

Best mbox file converter for mac. Java for Mac OS X 10.6 Update 17 delivers improved security, reliability, and compatibility by updating Java SE 6 to 1.6.0_65. This update enables per-website control of the Java plug-in within Safari 5.1.9 or later. Please quit any web browsers and Java applications before installing this update.

See for more details about this update. See for information about the security content of this update. Keep your software up to date. If you need Java, download the latest version of Java for OS X directly from Oracle.