def idea(request):
from api.models import *
from django.db.models import Max
params = {}
params['queries'] = internal.ListQueries(request, {'projectID': [request.session['projectID']]})
if request.method=='POST':
queryname = request.POST.get('query') or None
datasetname = request.POST.get('dataset') or None
method = request.POST.get('method') or None
category = request.POST.get('category') or None
featurecount = request.POST.get('amount', 10)
featurecount = int(featurecount) - 1
if not queryname or not datasetname or not method or not category: return render(request, 'profile.html', params)
query = internal.ListQueries(request, {'projectID': [request.session['projectID']], 'full': [True], 'queryname': [queryname]})
if not query or not len(query): return render(request, 'profile.html', params)
else: query = query[0]
filename = md5('stackedbars.%d.%d.%s.%s.%s.%d' % ( query['id'], query['project_id'], datasetname, method, category, featurecount )).hexdigest() + '.json'
furl = murl + filename
fpath = mroot + filename
if not os.path.isfile(fpath):
samplelist = myutils.fieldexpand(query['results'])
toptaxa = Analysis.objects.filter(project=request.session['projectID'], dataset=datasetname, method=method, category=category, sample__in=samplelist).values('entity').annotate(maxprofile=Max('profile')).distinct().order_by('-maxprofile')[:featurecount]
taxadict = {}
resp = [{'name': 'other', 'data': []}]
for i,t in enumerate(toptaxa, start=1):
taxadict[t['entity']] = {'loc': i, 'samples': []}
resp.append({'name': t['entity'], 'data': []})
rows = Analysis.objects.filter(project=request.session['projectID'], dataset=datasetname, method=method, category=category, sample__in=samplelist, entity__in=taxadict.keys()).order_by('-profile')
sampleloc = dict()
sampleorder = []
for row in rows:
if row.sample not in sampleloc:
sampleloc[row.sample] = {'group': row.entity, 'loc': len(taxadict[row.entity]['samples']), 'other': 100.0}
taxadict[row.entity]['samples'].append([{'sample': row.sample, 'entity': row.entity, 'y': row.profile}])
else:
taxadict[sampleloc[row.sample]['group']]['samples'][sampleloc[row.sample]['loc']].append({'sample': row.sample, 'entity': row.entity, 'y': row.profile})
sampleloc[row.sample]['other'] = sampleloc[row.sample]['other'] - row.profile
ctr = 0
for entitydict in toptaxa:
entity = entitydict['entity']
for samplelist in taxadict[entity]['samples']:
resp[0]['data'].append({'x': ctr, 'y': sampleloc[samplelist[0]['sample']]['other']})
sampleorder.append(samplelist[0]['sample'])
for sample in samplelist:
sample.pop("sample", None)
cur_entity = sample.pop("entity", None)
sample['x'] = ctr
resp[taxadict[cur_entity]['loc']]['data'].append(sample)
ctr += 1
with open(fpath, 'w') as outfile:
json.dump([sampleorder, resp], outfile)
return HttpResponse(json.dumps(furl), content_type="application/json")
return render(request, 'ideastackedbars.html', params)
def main(request):
params = {}
params['time'] = []
params['queries'] = internal.ListQueries(request, {'projectID': [request.session['projectID']]})
if request.method=='POST':
start = time.time()
queryname = request.POST.get('query') or None
dataset = request.POST.get('dataset') or None
method = request.POST.get('method') or None
category = request.POST.get('category') or None
if not queryname or not dataset or not method or not category: return render(request, 'profile.html', params)
params['feedback'] = 'Query selected: "%s"' % queryname
query = internal.ListQueries(request, {'projectID': [request.session['projectID']], 'full': [True], 'queryname': [queryname]})
if not query or not len(query): return render(request, 'profile.html', params)
else: query = query[0]
samplelist = myutils.fieldexpand(query['results'])
mark = time.time()
dataset = internal.GetDataset(request, params={'queryname': [queryname], 'projectID': [query['project_id']], 'dataset': [dataset], 'category': [category], 'method': [method]})
jsondata = []
magichash = {}
maxhash = {}
sorterhash = {}
entityorder = []
first = True
for d in dataset:
if first:
params['time'].append('parsed input and fetched API data: %.02f' %(time.time() - start))
first=False
if d.profile < 1: continue
if d.sample not in maxhash or d.profile > maxhash[d.sample]['val']: maxhash[d.sample] = {'entity': d.entity, 'val': d.profile}
if d.entity in magichash: magichash[d.entity][d.sample] = d.profile
else: magichash[d.entity] = {d.sample:d.profile}
params['time'].append('computed max profile values: %.02f ' %(time.time() - start))
for sample in sorted(maxhash, key=lambda x: maxhash[x]['val'], reverse=True):
if maxhash[sample]['val'] < 5: continue
if maxhash[sample]['entity'] not in sorterhash:
sorterhash[maxhash[sample]['entity']] = [sample]
entityorder.append(maxhash[sample]['entity'])
else: sorterhash[maxhash[sample]['entity']].append(sample)
params['time'].append('sorted taxa: %.02f' %(time.time() - start))
samplelist = []
for element in entityorder:
for x in sorterhash[element]: samplelist.append(x)
params['time'].append('sorted samples: %.02f' %(time.time() - start))
for m in magichash:
tmp = {'name': m, 'data': []}
for i,s in enumerate(samplelist):
if s in magichash[m]: tmp['data'].append(magichash[m][s])
else: tmp['data'].append(0)
jsondata.append(tmp)
params['time'].append('formatted data for JSON conversion: %.02f' %(time.time() - start))
params['json'] = json.dumps([samplelist, jsondata, params['time']])
return HttpResponse(params['json'], content_type="application/json")
return render(request, 'profile.html', params)
def main(request):
params = {}
params['queries'] = internal.ListQueries(request, {'projectID': [request.session['projectID']]})
if request.method=='POST':
start = time.time()
queryname = request.POST.get('query') or None
datasetname = request.POST.get('dataset') or None
method = request.POST.get('method') or None
category = request.POST.get('category') or None
if not queryname or not datasetname or not method or not category: return render(request, 'profile.html', params)
params['feedback'] = 'Query selected: "%s"' % queryname
query = internal.ListQueries(request, {'projectID': [request.session['projectID']], 'full': [True], 'queryname': [queryname]})
if not query or not len(query): return render(request, 'profile.html', params)
else: query = query[0]
filename = 'stackedbars.%d.%d.%s.%s.%s.csv' % ( query['id'], query['project_id'], datasetname, method, category )
furl = murl + filename
fpath = mroot + filename
if not os.path.isfile(fpath):
samplelist = myutils.fieldexpand(query['results'])
dataset = internal.GetDataset(request, params={'queryname': [queryname], 'projectID': [query['project_id']], 'dataset': [datasetname], 'category': [category], 'method': [method]})
with open(fpath, 'w') as f:
f.write('sample,taxa,profile\n')
#for d in dataset.order_by('sample'):
# if d.profile > 0.1: f.write("%s,%s,%f\n" % ( d.sample, d.entity, d.profile ))
taxahash = dict()
samplemax = dict()
datahash = dict()
for d in dataset:
if d.profile < 0.1: continue
if d.entity not in taxahash or d.profile > taxahash[d.entity]:
taxahash[d.entity] = d.profile
if d.entity not in datahash: datahash[d.entity] = dict()
if d.sample not in samplemax:
samplemax[d.sample] = {'e': d.entity, 'p': d.profile}
datahash[d.entity][d.sample] = {d.entity: d.profile}
elif d.profile > samplemax[d.sample]['p']:
current = samplemax[d.sample]
samplemax[d.sample] = {'e': d.entity, 'p': d.profile}
sampledata = datahash[current['e']][d.sample]
del datahash[current['e']][d.sample]
sampledata[d.entity] = d.profile
datahash[samplemax[d.sample]['e']][d.sample] = sampledata
else:
datahash[samplemax[d.sample]['e']][d.sample][d.entity] = d.profile
for t, tmax in sorted(taxahash.items(), key=lambda x: -x[1]):
for sample, data in sorted(datahash[t].items(), key= lambda x: -x[1][t]):
for entity, profile in sorted(data.items(), key=lambda x: x[1]):
f.write("%s,%s,%s\n" % (sample, entity, profile))
return HttpResponse(json.dumps(furl), content_type="application/json")
return render(request, 'stackedbars.html', params)
def main(request):
params = {}
params['time'] = []
params['queries'] = internal.ListQueries(
request, {'projectID': [request.session['projectID']]})
if request.method == 'POST':
start = time.time()
queryname = request.POST.get('query') or None
dataset = request.POST.get('dataset') or None
method = request.POST.get('method') or None
category = request.POST.get('category') or None
if not queryname or not dataset or not method or not category:
return render(request, 'profile.html', params)
params['feedback'] = 'Query selected: "%s"' % queryname
query = internal.ListQueries(
request, {
'projectID': [request.session['projectID']],
'full': [True],
'queryname': [queryname]
})
if not query or not len(query):
return render(request, 'profile.html', params)
else:
query = query[0]
samplelist = myutils.fieldexpand(query['results'])
mark = time.time()
dataset = internal.GetDataset(request,
params={
'queryname': [queryname],
'projectID': [query['project_id']],
'dataset': [dataset],
'category': [category],
'method': [method]
})
jsondata = []
magichash = {}
maxhash = {}
sorterhash = {}
entityorder = []
first = True
for d in dataset:
if first:
params['time'].append(
'parsed input and fetched API data: %.02f' %
(time.time() - start))
first = False
if d.profile < 1: continue
if d.sample not in maxhash or d.profile > maxhash[d.sample]['val']:
maxhash[d.sample] = {'entity': d.entity, 'val': d.profile}
if d.entity in magichash: magichash[d.entity][d.sample] = d.profile
else: magichash[d.entity] = {d.sample: d.profile}
params['time'].append('computed max profile values: %.02f ' %
(time.time() - start))
for sample in sorted(maxhash,
key=lambda x: maxhash[x]['val'],
reverse=True):
if maxhash[sample]['val'] < 5: continue
if maxhash[sample]['entity'] not in sorterhash:
sorterhash[maxhash[sample]['entity']] = [sample]
entityorder.append(maxhash[sample]['entity'])
else:
sorterhash[maxhash[sample]['entity']].append(sample)
params['time'].append('sorted taxa: %.02f' % (time.time() - start))
samplelist = []
for element in entityorder:
for x in sorterhash[element]:
samplelist.append(x)
params['time'].append('sorted samples: %.02f' % (time.time() - start))
for m in magichash:
tmp = {'name': m, 'data': []}
for i, s in enumerate(samplelist):
if s in magichash[m]: tmp['data'].append(magichash[m][s])
else: tmp['data'].append(0)
jsondata.append(tmp)
params['time'].append('formatted data for JSON conversion: %.02f' %
(time.time() - start))
params['json'] = json.dumps([samplelist, jsondata, params['time']])
return HttpResponse(params['json'], content_type="application/json")
return render(request, 'profile.html', params)
def idea(request):
from api.models import *
from django.db.models import Max
params = {}
params['queries'] = internal.ListQueries(
request, {'projectID': [request.session['projectID']]})
if request.method == 'POST':
queryname = request.POST.get('query') or None
datasetname = request.POST.get('dataset') or None
method = request.POST.get('method') or None
category = request.POST.get('category') or None
featurecount = request.POST.get('amount', 10)
featurecount = int(featurecount) - 1
if not queryname or not datasetname or not method or not category:
return render(request, 'profile.html', params)
query = internal.ListQueries(
request, {
'projectID': [request.session['projectID']],
'full': [True],
'queryname': [queryname]
})
if not query or not len(query):
return render(request, 'profile.html', params)
else:
query = query[0]
filename = md5('stackedbars.%d.%d.%s.%s.%s.%d' %
(query['id'], query['project_id'], datasetname, method,
category, featurecount)).hexdigest() + '.json'
furl = murl + filename
fpath = mroot + filename
if not os.path.isfile(fpath):
samplelist = myutils.fieldexpand(query['results'])
toptaxa = Analysis.objects.filter(
project=request.session['projectID'],
dataset=datasetname,
method=method,
category=category,
sample__in=samplelist).values('entity').annotate(
maxprofile=Max('profile')).distinct().order_by(
'-maxprofile')[:featurecount]
taxadict = {}
resp = [{'name': 'other', 'data': []}]
for i, t in enumerate(toptaxa, start=1):
taxadict[t['entity']] = {'loc': i, 'samples': []}
resp.append({'name': t['entity'], 'data': []})
rows = Analysis.objects.filter(
project=request.session['projectID'],
dataset=datasetname,
method=method,
category=category,
sample__in=samplelist,
entity__in=taxadict.keys()).order_by('-profile')
sampleloc = dict()
sampleorder = []
for row in rows:
if row.sample not in sampleloc:
sampleloc[row.sample] = {
'group': row.entity,
'loc': len(taxadict[row.entity]['samples']),
'other': 100.0
}
taxadict[row.entity]['samples'].append([{
'sample': row.sample,
'entity': row.entity,
'y': row.profile
}])
else:
taxadict[sampleloc[row.sample]['group']]['samples'][
sampleloc[row.sample]['loc']].append({
'sample': row.sample,
'entity': row.entity,
'y': row.profile
})
sampleloc[row.sample]['other'] = sampleloc[
row.sample]['other'] - row.profile
ctr = 0
for entitydict in toptaxa:
entity = entitydict['entity']
for samplelist in taxadict[entity]['samples']:
resp[0]['data'].append({
'x':
ctr,
'y':
sampleloc[samplelist[0]['sample']]['other']
})
sampleorder.append(samplelist[0]['sample'])
for sample in samplelist:
sample.pop("sample", None)
cur_entity = sample.pop("entity", None)
sample['x'] = ctr
resp[taxadict[cur_entity]['loc']]['data'].append(
sample)
ctr += 1
with open(fpath, 'w') as outfile:
json.dump([sampleorder, resp], outfile)
return HttpResponse(json.dumps(furl), content_type="application/json")
return render(request, 'ideastackedbars.html', params)
def main(request):
params = {}
params['queries'] = internal.ListQueries(
request, {'projectID': [request.session['projectID']]})
if request.method == 'POST':
start = time.time()
queryname = request.POST.get('query') or None
datasetname = request.POST.get('dataset') or None
method = request.POST.get('method') or None
category = request.POST.get('category') or None
if not queryname or not datasetname or not method or not category:
return render(request, 'profile.html', params)
params['feedback'] = 'Query selected: "%s"' % queryname
query = internal.ListQueries(
request, {
'projectID': [request.session['projectID']],
'full': [True],
'queryname': [queryname]
})
if not query or not len(query):
return render(request, 'profile.html', params)
else:
query = query[0]
filename = 'stackedbars.%d.%d.%s.%s.%s.csv' % (
query['id'], query['project_id'], datasetname, method, category)
furl = murl + filename
fpath = mroot + filename
if not os.path.isfile(fpath):
samplelist = myutils.fieldexpand(query['results'])
dataset = internal.GetDataset(request,
params={
'queryname': [queryname],
'projectID':
[query['project_id']],
'dataset': [datasetname],
'category': [category],
'method': [method]
})
with open(fpath, 'w') as f:
f.write('sample,taxa,profile\n')
#for d in dataset.order_by('sample'):
# if d.profile > 0.1: f.write("%s,%s,%f\n" % ( d.sample, d.entity, d.profile ))
taxahash = dict()
samplemax = dict()
datahash = dict()
for d in dataset:
if d.profile < 0.1: continue
if d.entity not in taxahash or d.profile > taxahash[
d.entity]:
taxahash[d.entity] = d.profile
if d.entity not in datahash: datahash[d.entity] = dict()
if d.sample not in samplemax:
samplemax[d.sample] = {'e': d.entity, 'p': d.profile}
datahash[d.entity][d.sample] = {d.entity: d.profile}
elif d.profile > samplemax[d.sample]['p']:
current = samplemax[d.sample]
samplemax[d.sample] = {'e': d.entity, 'p': d.profile}
sampledata = datahash[current['e']][d.sample]
del datahash[current['e']][d.sample]
sampledata[d.entity] = d.profile
datahash[samplemax[d.sample]['e']][
d.sample] = sampledata
else:
datahash[samplemax[d.sample]['e']][d.sample][
d.entity] = d.profile
for t, tmax in sorted(taxahash.items(), key=lambda x: -x[1]):
for sample, data in sorted(datahash[t].items(),
key=lambda x: -x[1][t]):
for entity, profile in sorted(data.items(),
key=lambda x: x[1]):
f.write("%s,%s,%s\n" % (sample, entity, profile))
return HttpResponse(json.dumps(furl), content_type="application/json")
return render(request, 'stackedbars.html', params)
