def advplot(self):
items=self.bMainList.selectedItems()
if len(items)!=1:
print("Need 1 item")
return
for citem in items:
cname=str(citem.text())
cexp=self.explist[cname]
dwin = AdvPlotWindow(cexp)
res=dwin.exec_()
if res==QtGui.QDialog.Accepted:
minreads=dwin.sMinReads.value()
cnumeric=dwin.cNumeric.checkState()
if cnumeric==0:
numeric=False
else:
numeric=True
cshowline=dwin.cLines.checkState()
if cshowline==0:
showline=False
else:
showline=True
csort=dwin.cSort.checkState()
if csort==0:
sortfield=False
else:
sortfield=str(dwin.cField.currentText())
hs.plotexp(cexp,sortby=sortfield,numeric=numeric,showline=showline,minreads=minreads,usegui=True,cdb=self.cooldb,seqdb=self.bactdb)
def view(self): cexp=self.cexp allsamp=np.arange(len(cexp.samples)) allbact=np.arange(len(cexp.seqs)) x=np.setdiff1d(allsamp,self.samples) sampo=np.concatenate((self.samples,x)) ubact=[] for cseq in self.seqs: ubact.append(cexp.seqdict[cseq]) bacto=np.concatenate((ubact,np.setdiff1d(allbact,ubact))) newexp=hs.reorderbacteria(cexp,bacto) newexp=hs.reordersamples(newexp,sampo,inplace=True) hs.plotexp(newexp,seqdb=self.bactdb,sortby=False,numeric=False,usegui=True,cdb=self.cooldb,showline=False)
def plotexp(self,**kwargs): hs.plotexp(self,**kwargs)
def plot(self): items=self.bMainList.selectedItems() for citem in items: cname=str(citem.text()) hs.plotexp(self.explist[cname],usegui=True,sortby=False,seqdb=self.bactdb,cdb=self.cooldb)
