diff options
Diffstat (limited to 'wqflask/wqflask/my_pylmm/pyLMM/runlmm.py')
| -rw-r--r-- | wqflask/wqflask/my_pylmm/pyLMM/runlmm.py | 5 |
1 files changed, 4 insertions, 1 deletions
diff --git a/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py b/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py index 547ac7f1..a322f988 100644 --- a/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py +++ b/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py @@ -70,6 +70,9 @@ parser.add_option("--saveKvaKve", parser.add_option("--test", action="store_true", dest="testing", default=False, help="Testing mode") +parser.add_option("--test-kinship", + action="store_true", dest="test_kinship", default=False, + help="Testing mode for Kinship calculation") (options, args) = parser.parse_args() @@ -140,7 +143,7 @@ elif cmd == 'kinship': if not options.skip_genotype_normalization: G = np.apply_along_axis( genotype.normalize, axis=1, arr=G) - if False: + if options.test_kinship: K = kinship_full(G) print "Genotype",G.shape, "\n", G print "first Kinship method",K.shape,"\n",K |