def new_exp(request, experiment_id=None):
def generate_sample_name(sample):
"""
naming standard:
CellLine.Library.TreatmentIfAny.shON/shOFF.time.A/B/C
Example: A549.K1_2.EZH2_150nM.shON.T21.A
"""
sample_name = ".".join([sample.cell_model.CCLE_name, sample.shRNA_library.LibName])
# if sample.pool_number is not None:
# pool_str = '_P'
# tmp = ''
# for p in sample.pool_number():
# tmp += '_'+p.description
# pool_str += tmp[1:]
# else:
# pool_str = '_PNone'
# sample_name = sample_name + pool_str
if sample.treatment and sample.treatment_dose:
treatment = "_".join([sample.treatment.compoundName, str(sample.treatment_dose)])
sample_name = ".".join([sample_name, treatment])
shrna = "shON"
if not sample.shRNA_on:
shrna = "shOFF"
sample_name = ".".join([sample_name, shrna, "".join(["T", str(sample.time_in_days)]), sample.replicate])
if sample.other_tag:
sample_name = sample_name + "." + sample.other_tag
return sample_name
if experiment_id:
experiment = get_object_or_404(Experiment, experiment_id=experiment_id)
expform = ExperimentForm(instance=experiment)
samforms = SampleFormSet(instance=experiment)
# if experiment.user != request.user:
# return HttpResponseForbidden()
else:
experiment = Experiment() # (user=request.user)
if request.POST:
if "create_exp" in request.POST or "add_sample" in request.POST:
expform = ExperimentForm(request.POST, instance=experiment)
samforms = SampleFormSet(request.POST, instance=experiment)
if expform.is_valid() and samforms.is_valid():
new_exp = expform.save(commit=False)
# automatic generate or modify fields
# save modified form
new_exp.save()
expform.save_m2m()
# sample forms
samforms.instance = new_exp
if samforms.has_changed():
for samform in samforms:
if samform.is_valid() and samform.has_changed() and (samform is not None):
new_sam = samform.save(commit=False)
# new_sam.pool_number = samform.cleaned_data['pool_number']
# new_sam.sample_id = experiment.sample_set.count() + 1
new_sam.sample_name = generate_sample_name(new_sam)
# new_sam.save()
# samform.save_m2m()
new_sam = samforms.save()
return HttpResponseRedirect("/virtual/new/confirm/%s/" % new_exp.experiment_id)
elif "delete_exp" in request.POST:
exp2delete = get_object_or_404(Experiment, experiment_id=experiment.experiment_id).delete()
# return HttpResponseRedirect('/virtual/delete/%s/' % experiment.experiment_id)
return HttpResponseRedirect("/virtual/new/confirm/%s/" % experiment.experiment_id)
else:
expform = ExperimentForm(instance=experiment)
samforms = SampleFormSet(instance=experiment)
args = {}
args.update(csrf(request))
args["expform"] = expform
args["samforms"] = samforms
return render_to_response("newExpView/new.html", args)
