1 files changed, 0 insertions, 71 deletions
diff --git a/gn3/utility/species.py b/gn3/utility/species.py
deleted file mode 100644
index 0140d41..0000000
--- a/gn3/utility/species.py
+++ /dev/null
@@ -1,71 +0,0 @@
-"""module contains species and chromosomes classes"""
-import collections
-
-from flask import g
-
-
-from gn3.utility.logger import getLogger
-logger = getLogger(__name__)
-
- # pylint: disable=too-few-public-methods
- # intentionally disabled check for few public methods
-
-class TheSpecies:
-    """class for Species"""
-
-    def __init__(self, dataset=None, species_name=None):
-        if species_name is not None:
-            self.name = species_name
-            self.chromosomes = Chromosomes(species=self.name)
-        else:
-            self.dataset = dataset
-            self.chromosomes = Chromosomes(dataset=self.dataset)
-
-
-
-class IndChromosome:
-    """class for IndChromosome"""
-
-    def __init__(self, name, length):
-        self.name = name
-        self.length = length
-
-    @property
-    def mb_length(self):
-        """Chromosome length in megabases"""
-        return self.length / 1000000
-
-
-
-
-class Chromosomes:
-    """class for Chromosomes"""
-
-    def __init__(self, dataset=None, species=None):
-        self.chromosomes = collections.OrderedDict()
-        if species is not None:
-            query = """
-                Select
-                        Chr_Length.Name, Chr_Length.OrderId, Length from Chr_Length, Species
-                where
-                        Chr_Length.SpeciesId = Species.SpeciesId AND
-                        Species.Name = '%s'
-                Order by OrderId
-                """ % species.capitalize()
-        else:
-            self.dataset = dataset
-
-            query = """
-                Select
-                        Chr_Length.Name, Chr_Length.OrderId, Length from Chr_Length, InbredSet
-                where
-                        Chr_Length.SpeciesId = InbredSet.SpeciesId AND
-                        InbredSet.Name = '%s'
-                Order by OrderId
-                """ % self.dataset.group.name
-        logger.sql(query)
-        results = g.db.execute(query).fetchall()
-
-        for item in results:
-            self.chromosomes[item.OrderId] = IndChromosome(
-                item.Name, item.Length)