diff options
Diffstat (limited to 'wqflask/base/trait.py')
| -rwxr-xr-x | wqflask/base/trait.py | 17 |
1 files changed, 13 insertions, 4 deletions
diff --git a/wqflask/base/trait.py b/wqflask/base/trait.py index f333d5a7..82e013ae 100755 --- a/wqflask/base/trait.py +++ b/wqflask/base/trait.py @@ -28,7 +28,7 @@ class GeneralTrait(object): """ - def __init__(self, **kw): + def __init__(self, get_qtl_info=False, **kw): # xor assertion assert bool(kw.get('dataset')) != bool(kw.get('dataset_name')), "Needs dataset ob. xor name"; if kw.get('dataset_name'): @@ -41,6 +41,14 @@ class GeneralTrait(object): self.haveinfo = kw.get('haveinfo', False) self.sequence = kw.get('sequence') # Blat sequence, available for ProbeSet self.data = kw.get('data', {}) + + # Sets defaultst + self.locus = None + self.lrs = None + self.pvalue = None + self.mean = None + self.num_overlap = None + if kw.get('fullname'): name2 = value.split("::") @@ -52,8 +60,9 @@ class GeneralTrait(object): # Todo: These two lines are necessary most of the time, but perhaps not all of the time # So we could add a simple if statement to short-circuit this if necessary - self.retrieve_info() + self.retrieve_info(get_qtl_info=get_qtl_info) self.retrieve_sample_data() + def get_name(self): @@ -237,7 +246,7 @@ class GeneralTrait(object): #def items(self): # return self.__dict__.items() - def retrieve_info(self, QTL=False): + def retrieve_info(self, get_qtl_info=False): assert self.dataset, "Dataset doesn't exist" if self.dataset.type == 'Publish': query = """ @@ -347,7 +356,7 @@ class GeneralTrait(object): if result: self.homologeneid = result[0] - if QTL: + if get_qtl_info: if self.dataset.type == 'ProbeSet' and not self.cellid: traitQTL = g.db.execute(""" SELECT |