diff options
| author | Peter Carbonetto | 2017-07-26 17:22:55 -0500 |
|---|---|---|
| committer | GitHub | 2017-07-26 17:22:55 -0500 |
| commit | ef9b204042749b5be9a090730a4738e5787ed268 (patch) | |
| tree | b2f46a454dae5af7795bf709088d4bd4082e6fde /test | |
| parent | 55dfeebd37aad6ae20a4cc3502507e2ba420a397 (diff) | |
| parent | c91dfaef84d08ce151eecca50bf8ffdaf4b327f6 (diff) | |
| download | pangemma-ef9b204042749b5be9a090730a4738e5787ed268.tar.gz | |
Merge pull request #60 from genenetwork/tests.
Diffstat (limited to 'test')
| -rwxr-xr-x | test/test_suite.sh | 30 |
1 files changed, 14 insertions, 16 deletions
diff --git a/test/test_suite.sh b/test/test_suite.sh index d1dbb3c..ebbe4c7 100755 --- a/test/test_suite.sh +++ b/test/test_suite.sh @@ -8,11 +8,11 @@ testCenteredRelatednessMatrixK() { assertEquals 0 $? grep "total computation time" < output/mouse_hs1940.log.txt assertEquals 0 $? - 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` - # FIXME: The following test fails in the Guix build system (https://github.com/xiangzhou/GEMMA/issues/55) - assertEquals "24.9799" `awk '{s+=substr($1,0,6)}END{print s}' output/mouse_hs1940.cXX.txt` + outfn=output/mouse_hs1940.cXX.txt + assertEquals "1940" `wc -l < $outfn` + assertEquals "3763600" `wc -w < $outfn` + assertEquals "0.335" `head -c 5 $outfn` + assertEquals "24.9799" `perl -nle '$sum += substr($_,0,6) } END { print $sum' $outfn` } testUnivariateLinearMixedModel() { @@ -22,8 +22,9 @@ testUnivariateLinearMixedModel() { assertEquals 0 $? grep "total computation time" < output/mouse_hs1940_CD8_lmm.log.txt assertEquals 0 $? - 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` + outfn=output/mouse_hs1940_CD8_lmm.assoc.txt + assertEquals "118459" `wc -w < $outfn` + assertEquals "92047" `perl -nle '$sum += substr($_,0,6) } END { print $sum' $outfn` } testMultivariateLinearMixedModel() { @@ -36,19 +37,16 @@ testMultivariateLinearMixedModel() { outfn=output/mouse_hs1940_CD8MCH_lmm.assoc.txt assertEquals "139867" `wc -w < $outfn` - assertEquals "92079" `awk '{s+=substr($1,0,6)}END{print s}' $outfn` + assertEquals "92079" `perl -nle '$sum += substr($_,0,6) } END { print $sum' $outfn` } - shunit2=`which shunit2` -if [ -e "../contrib/shunit2/source/2.0/src/shell/shunit2" ]; then - echo try to run the locally installed shunit2 - . ../contrib/shunit2/source/2.0/src/shell/shunit2 -elif [ -e "shunit2-2.0.3/src/shell/shunit2" ]; then - echo try to run the older locally installed shunit2 - . shunit2-2.0.3/src/shell/shunit2 -elif [ -x "$shunit2" ]; then + +if [ -x "$shunit2" ]; then echo run system shunit2 . $shunit2 +elif [ -e shunit2-2.0.3/src/shell/shunit2 ]; then + echo run shunit2 provided in gemma repo + . shunit2-2.0.3/src/shell/shunit2 else echo "Can not find shunit2 - see INSTALL.md" fi |