GEMINI (GEnome MINIng) is a flexible framework for exploring genetic variation in the context of the wealth of genome annotations available for the human genome. By placing genetic variants, sample phenotypes and genotypes, as well as genome annotations into an integrated database framework, GEMINI provides a simple, flexible, and powerful system for exploring genetic variation for disease and population genetics.
The following module command makes the latest version of gemini available to your session:
module load apps/gcc/4.4.7/gemini
Alternatively, you can make a specific version available:
module load apps/gcc/4.4.7/gemini/0.18
These are primarily for system administrators.
install_gemini.shThe test script used was
The full output from the test run is on the system at /usr/local/packages6/apps/gcc/4.4.7/gemini/0.18/test_results/
There was one failure:
effstring.t02...\c
ok
effstring.t03...\c
15d14
< gene impact impact_severity biotype is_exonic is_coding is_lof
64a64
> gene impact impact_severity biotype is_exonic is_coding is_lof
fail
updated 10 variants
annotate-tool.t1 ... ok
updated 10 variants
annotate-tool.t2 ... ok
This was reported to the developers who indicated that it was nothing to worry about
The module file is on the system at /usr/local/modulefiles/apps/gcc/4.4.7/gemini/0.18
The contents of the module file is
#%Module1.0#####################################################################
##
## Gemini module file
##
## Module file logging
source /usr/local/etc/module_logging.tcl
##
proc ModulesHelp { } {
global bedtools-version
puts stderr " Adds `gemini-$geminiversion' to your PATH environment variable"
}
set geminiversion 0.18
prepend-path PATH /usr/local/packages6/apps/gcc/4.4.7/gemini/0.18/bin/