Closed zhoudan-brandeis closed 1 year ago
Running 1.1.15, default cosmos+hmm settings
here is the error:
Dwell-time analysis ... --------------------------------------------------------------------------- KeyError Traceback (most recent call last) File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/tapqir/gui.py:1350, in dtCmd(b, layout, out) 1348 with out: 1349 logger.info("Dwell-time analysis ...") -> 1350 dwelltime( 1351 **layout.kwargs, 1352 progress_bar=tqdm_notebook, 1353 ) 1354 logger.info("Dwell-time analysis: Done") 1355 out.clear_output(wait=True) File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/tapqir/main.py:1213, in dwelltime(model, K, cuda, num_samples, num_iter, progress_bar) 1211 logger.exception(f"Failed to load {err.name} file") 1212 return 1 -> 1213 z_samples = model.z_sample(num_samples=num_samples) 1214 z_samples_masked = z_samples[:, model.data.mask[: model.data.N]] 1215 for c in range(model.data.C): File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/tapqir/models/hmm.py:659, in hmm.z_sample(self, num_samples) 658 def z_sample(self, num_samples): --> 659 init_probs = pyro.param("z_trans").data[: self.data.N, 0, :, 0] 660 init_probs = init_probs.expand((num_samples,) + init_probs.shape) 661 x = dist.Categorical(init_probs).sample() File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/pyro/primitives.py:78, in param(name, init_tensor, constraint, event_dim) 76 # Note effectful(-) requires the double passing of name below. 77 args = (name,) if init_tensor is None else (name, init_tensor) ---> 78 return _param(*args, constraint=constraint, event_dim=event_dim, name=name) File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/pyro/poutine/runtime.py:264, in effectful.<locals>._fn(*args, **kwargs) 261 is_observed = value is not None 263 if not am_i_wrapped(): --> 264 return fn(*args, **kwargs) 265 else: 266 msg = { 267 "type": type, 268 "name": name, (...) 280 "infer": infer, 281 } File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/pyro/params/param_store.py:215, in ParamStoreDict.get_param(self, name, init_tensor, constraint, event_dim) 199 """ 200 Get parameter from its name. If it does not yet exist in the 201 ParamStore, it will be created and stored. (...) 212 :rtype: torch.Tensor 213 """ 214 if init_tensor is None: --> 215 return self[name] 216 else: 217 return self.setdefault(name, init_tensor, constraint) File ~/anaconda3/envs/tapqir-env/lib/python3.8/site-packages/pyro/params/param_store.py:106, in ParamStoreDict.__getitem__(self, name) 102 def __getitem__(self, name): 103 """ 104 Get the *constrained* value of a named parameter. 105 """ --> 106 unconstrained_value = self._params[name] 108 # compute the constrained value 109 constraint = self._constraints[name] KeyError: 'z_trans
This has been fixed in the version 1.1.16 of Tapqir
Running 1.1.15, default cosmos+hmm settings
here is the error: