Tests: added test for univariate and multivariate LMM

Also added 'make check' command in Makefile and documented in INSTALL.md

1 files changed, 17 insertions, 0 deletions

diff --git a/test/test_suite.sh b/test/test_suite.sh
index effc056..8adc5c9 100755
--- a/test/test_suite.sh
+++ b/test/test_suite.sh
@@ -11,6 +11,23 @@ testCenteredRelatednessMatrixK() {
     assertEquals "29.691" `awk '{s+=substr($1,0,6)}END{print s}' output/mouse_hs1940.cXX.txt`
 }
 
+testUnivariateLinearMixedModel() {
+    $gemma -g ../example/mouse_hs1940.geno.txt.gz -p ../example/mouse_hs1940.pheno.txt -n 1 \
+           -a ../example/mouse_hs1940.anno.txt -k ./output/mouse_hs1940.cXX.txt -lmm \
+           -o mouse_hs1940_CD8_lmm
+    assertEquals "118459" `wc -w < output/mouse_hs1940_CD8_lmm.assoc.txt`
+    assertEquals "92047" `awk '{s+=substr($1,0,6)}END{print s}' output/mouse_hs1940_CD8_lmm.assoc.txt`
+}
+
+testMultivariateLinearMixedModel() {
+    $gemma -g ../example/mouse_hs1940.geno.txt.gz -p ../example/mouse_hs1940.pheno.txt \
+           -n 1 6 -a ../example/mouse_hs1940.anno.txt -k ./output/mouse_hs1940.cXX.txt \
+           -lmm -o mouse_hs1940_CD8MCH_lmm
+    outfn=output/mouse_hs1940_CD8MCH_lmm.assoc.txt
+    assertEquals "139867" `wc -w < $outfn`
+    assertEquals "92079" `awk '{s+=substr($1,0,6)}END{print s}' $outfn`
+}
+
 shunit2=`which shunit2`
 if [ -x "$shunit2" ]; then
     . $shunit2