Download
Download JSpecies
Installation
In order to calculate ANI values, JSpecies needs local access to BLAST, fastcmd, formatDB and MUMmer.
Download BLAST here (includes blastall, fastcmd and formatdb)
A detailed installation description can be found here. JSpecies do not necessarily need the configuration part.
Download the MUMmer package here (includes NUCmer)
MUMmer is NOT available for Windows operating systems, but has been tested successfully on:
- Redhat Linux 6.2, 7.3 (Pentium 4)
- Compaq Tru64 UNIX 5.1 (alpha)
- SunOS UNIX 5.8 (sparc)
- Mac OS X 10.2.8 (PowerPC G4)
Remember: If you start JSpecies for the first time you have to adjust the general parameters to the installation path here .
Run JSpecies via Webstart
Frequently asked questions about:
Most likely, you do not have Java installed on your computer or a too old version (1.2). Please install or update Java from the Sun website. After installation, close and restart your browser.
Most likely, your are not administrator on your system. Please ask your IT deparment to install Java on your computer.
No, JSpecies runs under all Linux operating systems, as well as Windows. However, some Linux distributions will not have a file association with Java Web start (javaws) to handle *.jnlp files. This can be remedied. In a console, type "which javaws" at the command line. Manually copy this full javaws path (e.g. /opt/sun-jdk-1.6.0.10/bin/javaws) and paste it in the "open file with..." window when prompted by your internet browser.
Download JSpecies Standalone
Information: If you download JSpecies you can start the .jar by typing:
java -jar -Xms1024m -Xmx1024m jspecies1.2.jar
Older versions
Version 1.1
JSpecies V1.1 Webstart
Download JSpecies V1.1
Version 1.0
JSpecies V1.0 Webstart
Download JSpecies V1.0