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fixed normalize_chromosome, made all_feature_values private #144

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merged 3 commits into from
Mar 29, 2016

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iskandr
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@iskandr iskandr commented Mar 29, 2016

Fixed bug in normalize_chromosome where lowercase mitochondrial names were sneaking through.

Also fixed #139 by making Genome.all_feature_values private.

Added unit test for newly added Genome.contigs()


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@@ -41,17 +41,20 @@ def normalize_chromosome(c):
if result.startswith("chr"):
result = result[3:]

# just in case someone is being lazy, capitalize "X" and "Y"
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And M/MT? Can you add that to clarify?

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👍

@tavinathanson
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LGMT % minor comment

@iskandr iskandr changed the title fixed normalize_chromosome, made all_feature_values privats fixed normalize_chromosome, made all_feature_values private Mar 29, 2016
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Coverage Status

Coverage increased (+0.07%) to 80.121% when pulling 89c94c0 on fix-normalize-chromosome into 327c7e7 on master.

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Coverage Status

Coverage increased (+0.07%) to 80.121% when pulling 89c94c0 on fix-normalize-chromosome into 327c7e7 on master.

@iskandr iskandr merged commit 22dd18c into master Mar 29, 2016
@iskandr iskandr deleted the fix-normalize-chromosome branch March 29, 2016 22:29
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Make Genome.all_feature_values private
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