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nogls.t2 test fails #941

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mmokrejs opened this issue Dec 29, 2019 · 0 comments
Open

nogls.t2 test fails #941

mmokrejs opened this issue Dec 29, 2019 · 0 comments

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@mmokrejs
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Hi,
I just installed gemini and ran the test suite but it fails with:

 nogls.t2
1,4c1,4
< chrom	start	end	variant_id	gene	family_id	family_members	family_genotypes	samples	family_count	violation	violation_prob
< chr1	10670	10671	1	None	CEPH1463	NA12889(NA12889;unknown;male),NA12890(NA12890;unknown;female),NA12877(NA12877;unknown;male)	G/G,G/G,G/C	NA12877	1	plausible de novo	0.96228
< chr1	28493	28494	2	None	CEPH1463	NA12889(NA12889;unknown;male),NA12890(NA12890;unknown;female),NA12877(NA12877;unknown;male)	T/C,T/T,C/C	NA12877	1	loss of heterozygosity	0.65973
< chr1	28627	28628	3	None	CEPH1463	NA12889(NA12889;unknown;male),NA12890(NA12890;unknown;female),NA12877(NA12877;unknown;male)	C/C,C/C,C/T	NA12877	1	plausible de novo	0.98859
---
> chrom	start	end	variant_id	gene	family_id	family_members	family_genotypes	samples	family_count	violation
> chr1	10670	10671	1	None	CEPH1463	NA12889(NA12889;unknown;male),NA12890(NA12890;unknown;female),NA12877(NA12877;unknown;male)	G/G,G/G,G/C	NA12877	1	plausible de novo
> chr1	28493	28494	2	None	CEPH1463	NA12889(NA12889;unknown;male),NA12890(NA12890;unknown;female),NA12877(NA12877;unknown;male)	T/C,T/T,C/C	NA12877	1	loss of heterozygosity
> chr1	28627	28628	3	None	CEPH1463	NA12889(NA12889;unknown;male),NA12890(NA12890;unknown;female),NA12877(NA12877;unknown;male)	C/C,C/C,C/T	NA12877	1	plausible de novo
fail

The last commit is bc84fe2

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