verbose_name_plural = "antibodies"
ordering = ["antigene"]
class Admin:
- search_fields = ['antigene','nickname','catalog','antibodies','source','biology','notes']
list_display = ('antigene','nickname','antibodies','catalog','source','biology','notes')
list_filter = ('antibodies','source')
+ search_fields = ['antigene','nickname','catalog','antibodies','source','biology','notes']
fields = (
(None, {
'fields': (('antigene','nickname','antibodies'),('catalog','source'),('biology'),('notes'))
class Meta:
ordering = ["cellline_name"]
-
+
class Admin:
list_display = ('cellline_name','nickname','notes')
search_fields = ['cellline_name','nickname','notes']
)
class Tag(models.Model):
- tag_name = models.CharField(max_length=100, unique=True,db_index=True,core=True,blank=False,null=False)
+ tag_name = models.CharField(max_length=100,unique=True, db_index=True,core=True,blank=False,null=False)
TAG_CONTEXT = (
#('Antibody','Antibody'),
#('Cellline', 'Cellline'),
# New field Aug/25/08. SQL: alter table fctracker_library add column "lib_affiliation" varchar(256) NULL;
affiliations = models.ManyToManyField(Affiliation,related_name='library_affiliations',null=True,filter_interface=models.HORIZONTAL)
# New field Nov/14/08
- tags = models.ManyToManyField(Tag,related_name='library_tags',blank=True,null=True,filter_interface=models.HORIZONTAL)
+ tags = models.ManyToManyField(Tag,related_name='library_tags',null=True,blank=True,filter_interface=models.HORIZONTAL)
# New field Aug/19/08
# SQL to add column: alter table fctracker_library add column "replicate" smallint unsigned NULL;
REPLICATE_NUM = ((1,1),(2,2),(3,3),(4,4))
def aligned_reads(self):
res = getLibReads(self.library_id)
- # Check data sanlty
+ # Check data sanlty
if res[2] != 'OK':
return '<div style="border:solid red 2px">'+res[2]+'</div>'
rc = "%1.2f" % (res[1]/1000000.0)
# Color Scheme: green is more than 12M, blue is more than 5M, orange is more than 3M and red is less. For RNAseq, all those thresholds should be doubled
- if res[0] > 0:
- bgcolor = '#FFCDD0' # Red, the color for minimum read count
- rc_thr = [12000000,5000000,3000000]
- if self.experiment_type == 'RNA-seq':
- rc_thr = [20000000,10000000,6000000]
+ bgcolor = '#FFCDD0' # Red, the color for minimum read count
+ rc_thr = [12000000,5000000,3000000]
+ if self.experiment_type == 'RNA-seq':
+ rc_thr = [20000000,10000000,6000000]
+
+ if self.libtags().find('Bad library')!=-1:
+ bgcolor = '#cccccc'
+ else:
if res[1] > rc_thr[0]:
- bgcolor = '#66ff66' # Green
+ bgcolor = '#66ff66' # Green
else:
if res[1] > rc_thr[1]:
- bgcolor ='#00ccff' # Blue
+ bgcolor ='#00ccff' # Blue
else:
- if res[1] > rc_thr[2]:
+ if res[1] > rc_thr[2]:
bgcolor ='#ffcc33' # Orange
- tstr = '<div style="background-color:'+bgcolor+';color:black">'
- tstr += res[0].__str__()+' Lanes, '+rc+' M'
- tstr += '</div>'
- else: tstr = 'not processed yet'
+
+ tstr = '<div style="background-color:'+bgcolor+';color:black">'
+ if res[0] > 0: tstr += res[0].__str__()+' Lanes, '+rc+' M'
+ else: tstr += 'not processed yet'
+ tstr += '</div>'
+
return tstr
aligned_reads.allow_tags = True