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| author | Peter Carbonetto | 2017-08-21 10:31:26 -0500 |
|---|---|---|
| committer | GitHub | 2017-08-21 10:31:26 -0500 |
| commit | aea3d24c680778cf1691a8c2a76f3221e7f373d6 (patch) | |
| tree | 8a1ba0770e2344469c58290d4192db186d9439cb /test/dev_test_suite.sh | |
| parent | 85797beb24da3d591a79fddcff4ab48d702b465f (diff) | |
| parent | 2e76646998df0ca1b7d160329c0f3ac8cdda2fe0 (diff) | |
| download | pangemma-aea3d24c680778cf1691a8c2a76f3221e7f373d6.tar.gz | |
Merge pull request #73 from genenetwork/merge-checkK
Check K and added unit test framework.
Diffstat (limited to 'test/dev_test_suite.sh')
| -rwxr-xr-x | test/dev_test_suite.sh | 21 |
1 files changed, 2 insertions, 19 deletions
diff --git a/test/dev_test_suite.sh b/test/dev_test_suite.sh index fb88e9d..0b65c1e 100755 --- a/test/dev_test_suite.sh +++ b/test/dev_test_suite.sh @@ -2,23 +2,6 @@ gemma=../bin/gemma -# Test for https://github.com/genetics-statistics/GEMMA/issues/26 -# Always getting 'pve estimate =0.99xxx se(pve) =-nan' -testIssue26() { - outn=issue26 - rm -f output/$outn.* - $gemma -bfile data/issue26/mydata -k data/issue26/mydata_kinship.sXX.txt \ - -miss 1 -maf 0.01 -r2 1 -lmm \ - -debug -issue 26 \ - -o $outn - assertEquals 0 $? - outfn=output/$outn.assoc.txt - grep "total computation time" < output/$outn.log.txt - assertEquals 0 $? - assertEquals "2001" `wc -l < $outfn` - assertEquals "1582899231.18" `perl -nle 'foreach $x (split(/\s+/,$_)) { $sum += sprintf("%.2f",(substr($x,,0,6))) } END { printf "%.2f",$sum }' $outfn` -} - testCenteredRelatednessMatrixKLOCO1() { outn=mouse_hs1940_LOCO1 rm -f output/$outn.* @@ -57,9 +40,9 @@ shunit2=`which shunit2` if [ -x "$shunit2" ]; then echo run system shunit2 . $shunit2 -elif [ -e shunit2-2.0.3/src/shell/shunit2 ]; then +elif [ -e ../contrib/shunit2-2.0.3/src/shell/shunit2 ]; then echo run shunit2 provided in gemma repo - . shunit2-2.0.3/src/shell/shunit2 + . ../contrib/shunit2-2.0.3/src/shell/shunit2 else echo "Can not find shunit2 - see INSTALL.md" fi |