Installation¶
System requirements¶
- Any Java-enabled platform (Windows, Linux, Mac OS X)
- Java version 7 or higher (download from Oracle web site)
- 1–16 Gb RAM (depending on number of clones in the sample)
Installation on Mac OS X / Linux¶
Check that you have Java 1.7+ installed on your system by typing
java -version
. Here is the example output of this command:> java -version java version "1.7.0_65" Java(TM) SE Runtime Environment (build 1.7.0_65-b17) Java HotSpot(TM) 64-Bit Server VM (build 24.65-b04, mixed mode)
unzip the archive with MiXCR
add extracted folder of MiXCR distribution to your
PATH
variable or add symbolic link formixcr
script to yourbin/
folder (e.g.~/bin/
in Ubuntu and many other popular linux distributions)
Installation on Windows¶
Currently there is no execution script or installer for Windows. Still MiXCR can easily be used by direct execution from the jar file.
check that you have Java 1.7+ installed on your system by typing
java -version
unzip the archive with MiXCR
use
mixcr.jar
from the archive in the following way:> java -Xmx4g -Xms3g -jar path_to_mixcr\jar\mixcr.jar ...
For example:
> java -Xmx4g -Xms3g -jar C:\path_to_mixcr\jar\mixcr.jar align input.fastq.gz output.vdjca
To use mixcr from jar
file one need to substitute mixcr
command
with java -Xmx4g -Xms3g -jar path_to_mixcr\jar\mixcr.jar
in all
examples from this manual.