Please read this before downloading Sockeye 0.8.3
Installing and uninstalling
- Sockeye installs using InstallAnywhere from Zero G. At the download page,
you will be offered a signed applet from Zero G. If you accept it,
be able to do either an automatic or a manual install. Instructions for
the manual install are given on the the download page, below the download links.
If you decline the applet, you will be able to do only a manual install.
- Sockeye can easily be uninstalled. On Linux / Windows, run the
Uninstall_Sockeye... shell script / application file in
the UninstallerData subdirectory under the Sockeye installation directory.
On Windows, you can also use Control Panel > Add or Remove Programs.
- Mac OS X: When Java3D is available for OS X, we will make
a version of Sockeye available for this OS. See
Updates will be available frequently. Please subscribe to
firstname.lastname@example.org for release information.
- Sockeye is a Java application. Downloads are bundled with a Java3D-enabled
Java Runtime (JRE 1.4.1_01). You do not need to have Java installed in
order to run Sockeye. Depending on user requests, we may offer versions without
a bundled JRE.
- We have tested on RedHat 7.2 and 8.0.
- The download file is 50+ MB. The installed application needs
- We have tested on Win2K, and on XP Pro and Home.
- The download file is 21+ MB. The installed application needs
- We offer installers with either DirectX or OpenGL Java3D.
If you have problems with one, please uninstall it and try the other.
- The DirectX version requires a recent version of DirectX. We have tested
v0.8.3 with Microsoft's current version,
on Win2K and XP Pro.
We have run Sockeye on PCs with between 192 MB and 1 GB of RAM. The
prerelease allows Sockeye's Java a maximum of 64 MB RAM. We are exploring giving
Sockeye more RAM than this, but have temporarily put two limits into Sockeye to
prevent OutOfMemory errors on large datasets. Please see Limitations in the online
Sockeye is a 3D application. It demands far more graphics card
power than a 2D genomic browser. The development team works with cards that are
at least at the level of a GeForce2 MX. A card of this level gives
sluggish 3D response when rendering, e.g. all genes on human chromosome 1.
Source code will be made available at a later date.
Installed directory structure
Sockeye installs the following directory structure. You can choose the install_directory.
- install_directory -
sockeye.log (runtime error messages), ...
- data/GFF - example GFF files
- help - properties file for online Help frame
- images - GIF and JPG files
- jre - Java JRE with Java3D
- lib - JAR files
- models - VRML models for 3D features
- UninstallerData - uninstaller files
Last modified: 2003_04_29, 18h05