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authorzsloan2015-05-22 21:47:48 +0000
committerzsloan2015-05-22 21:47:48 +0000
commit809990fca27c0bae3573c0572c384cb6f6f3325d (patch)
treeacc0c8f346629716d1f2b6d5ecda1c3226447187 /wqflask/base
parentcce1715090f0ef7579881c0b9de49b3a49f5a249 (diff)
downloadgenenetwork2-809990fca27c0bae3573c0572c384cb6f6f3325d.tar.gz
Fixed issue where correlation didn't work for human traits (and probably some others)
Diffstat (limited to 'wqflask/base')
-rwxr-xr-xwqflask/base/mrna_assay_tissue_data.py6
-rwxr-xr-xwqflask/base/trait.py2
2 files changed, 5 insertions, 3 deletions
diff --git a/wqflask/base/mrna_assay_tissue_data.py b/wqflask/base/mrna_assay_tissue_data.py
index 1a05fce7..b2c0448a 100755
--- a/wqflask/base/mrna_assay_tissue_data.py
+++ b/wqflask/base/mrna_assay_tissue_data.py
@@ -51,15 +51,15 @@ class MrnaAssayTissueData(object):
query += ''' Symbol in {} group by Symbol)
as x inner join TissueProbeSetXRef as t on t.Symbol = x.Symbol
- and t.Mean = x.maxmean;
+ and t.Mean = x.maxmean;http://docs.python.org/2/library/string.html?highlight=lower#string.lower
'''.format(in_clause)
results = g.db.execute(query).fetchall()
for result in results:
symbol = result[0]
- if symbol in gene_symbols:
- #gene_symbols.append(symbol)
+ if symbol.lower() in [gene_symbol.lower() for gene_symbol in gene_symbols]:
+ #gene_symbols.append(symbol)
symbol = symbol.lower()
self.data[symbol].gene_id = result.GeneId
diff --git a/wqflask/base/trait.py b/wqflask/base/trait.py
index 8930c917..7f1170a9 100755
--- a/wqflask/base/trait.py
+++ b/wqflask/base/trait.py
@@ -423,6 +423,8 @@ class GeneralTrait(object):
if result:
self.locus_chr = result[0]
self.locus_mb = result[1]
+ else:
+ self.locus = self.locus_chr = self.locus_mb = ""
else:
self.locus = self.locus_chr = self.locus_mb = ""
else: