From d8db988550d4cd0303f0b82a75499c2c94d97d45 Mon Sep 17 00:00:00 2001
From: Peter Carbonetto
Date: Wed, 2 Aug 2017 16:50:23 -0500
Subject: Reformatted gemma calls in test_suite.sh.

---
 test/test_suite.sh | 21 +++++++++++++--------
 1 file changed, 13 insertions(+), 8 deletions(-)

(limited to 'test')

diff --git a/test/test_suite.sh b/test/test_suite.sh
index ebbe4c7..467056e 100755
--- a/test/test_suite.sh
+++ b/test/test_suite.sh
@@ -3,8 +3,10 @@
 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
+    $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 0 $?
     grep "total computation time" < output/mouse_hs1940.log.txt
     assertEquals 0 $?
@@ -16,9 +18,10 @@ testCenteredRelatednessMatrixK() {
 }
 
 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
+    $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 0 $?
     grep "total computation time" < output/mouse_hs1940_CD8_lmm.log.txt
     assertEquals 0 $?
@@ -28,9 +31,10 @@ testUnivariateLinearMixedModel() {
 }
 
 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
+    $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
     assertEquals 0 $?
     grep "total computation time" < output/mouse_hs1940_CD8MCH_lmm.log.txt
     assertEquals 0 $?
@@ -39,6 +43,7 @@ testMultivariateLinearMixedModel() {
     assertEquals "139867" `wc -w < $outfn`
     assertEquals "92079" `perl -nle '$sum += substr($_,0,6) } END { print $sum' $outfn`
 }
+
 shunit2=`which shunit2`
 
 if [ -x "$shunit2" ]; then
-- 
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