aboutsummaryrefslogtreecommitdiff
path: root/wqflask/base/species.py
diff options
context:
space:
mode:
authorZachary Sloan2013-06-26 21:35:07 +0000
committerZachary Sloan2013-06-26 21:35:07 +0000
commit6fbbfe5e8bcc3b57c4177687bbf67bf041da3cba (patch)
tree80b2b5252f3bfb42a8f01e2df2c27a5a21cbbb7b /wqflask/base/species.py
parentd703c6e456334187a279c04e9b4cf6a8e5099785 (diff)
downloadgenenetwork2-6fbbfe5e8bcc3b57c4177687bbf67bf041da3cba.tar.gz
Got code that creates DataSets object running
Fixed one genofile that had extra quotation marks in the comments that caused an error Defaults mb_graph_interval to 1 for species without chromosome lengths in megabases
Diffstat (limited to 'wqflask/base/species.py')
-rw-r--r--wqflask/base/species.py10
1 files changed, 8 insertions, 2 deletions
diff --git a/wqflask/base/species.py b/wqflask/base/species.py
index 191f4535..ebc2bfed 100644
--- a/wqflask/base/species.py
+++ b/wqflask/base/species.py
@@ -56,6 +56,7 @@ class Chromosomes(object):
InbredSet.Name = %s
Order by OrderId
""", self.dataset.group.name).fetchall()
+ print("group: ", self.dataset.group.name)
print("bike:", results)
for item in results:
@@ -68,9 +69,14 @@ class Chromosomes(object):
def set_mb_graph_interval(self):
"""Empirical megabase interval"""
+ if self.chromosomes:
+ self.mb_graph_interval = self.get_genome_mb_length()/(len(self.chromosomes)*12)
+ else:
+ self.mb_graph_interval = 1
+
#if self.chromosomes:
- assert self.chromosomes, "Have to add some code back in apparently to set it to 1"
- self.mb_graph_interval = self.get_genome_mb_length()/(len(self.chromosomes)*12)
+ #assert self.chromosomes, "Have to add some code back in apparently to set it to 1"
+ #self.mb_graph_interval = self.get_genome_mb_length()/(len(self.chromosomes)*12)
#else:
#self.mb_graph_interval = 1