test/test_suite.sh


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#!/usr/bin/env bash

gemma=../bin/gemma

testCenteredRelatednessMatrixK() {
    $gemma -g ../example/mouse_hs1940.geno.txt.gz -p ../example/mouse_hs1940.pheno.txt \
           -a ../example/mouse_hs1940.anno.txt -gk -o mouse_hs1940
    assertEquals "3763600" `wc -w < output/mouse_hs1940.cXX.txt`
    # assertEquals "15f680c" `md5sum < output/mouse_hs1940.cXX.txt | head -c 7`
    assertEquals "0.335" `head -c 5 output/mouse_hs1940.cXX.txt`
    assertEquals "29.691" `awk '{s+=substr($1,0,6)}END{print s}' output/mouse_hs1940.cXX.txt`
}

shunit2=`which shunit2`
if [ -x "$shunit2" ]; then
    . $shunit2
else
    # try to run the locally installed shunit2
    . ../shunit2-2.0.3/src/shell/shunit2
fi