diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index fee343308..f1a4fa9b6 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -44,6 +44,12 @@ jobs: - name: check if readme yaml works run: rm -r zoutput && python main_out.py -c ./examples/conf/vlcs_diva_mldg_dial.yaml - name: test if examples in markdown works - run: bash -x -v ci_run_examples.sh + run: bash -x -v scripts/ci_run_examples.sh - name: test if benchmark works - run: pip install snakemake==7.32.0 && pip install pulp==2.7.0 && sed -i '1s/^/#!\/bin\/bash -x -v\n/' run_benchmark_standalone.sh && bash -x -v run_benchmark_standalone.sh examples/benchmark/demo_shared_hyper_grid.yaml && cat zoutput/benchmarks/mnist_benchmark_grid/hyperparameters.csv && cat zoutput/benchmarks/mnist_benchmark_grid/results.csv + run: | + pip install snakemake==7.32.0 && pip install pulp==2.7.0 + echo "insert a shebang line (#!/bin/bash -x -v) at the beginning of the bash script" + sed -i '1s/^/#!\/bin\/bash -x -v\n/' run_benchmark_standalone.sh + bash -x -v run_benchmark_standalone.sh examples/benchmark/demo_shared_hyper_grid.yaml + cat zoutput/benchmarks/mnist_benchmark_grid*/hyperparameters.csv + cat zoutput/benchmarks/mnist_benchmark_grid*/results.csv diff --git a/.gitignore b/.gitignore index 2e1aa7a74..a351b31fe 100644 --- a/.gitignore +++ b/.gitignore @@ -1,7 +1,13 @@ .ropeproject -./zdpath -./zoutput +/zdpath +/zoutput tests/__pycache__/ *.pyc .vscode/ domainlab/zdata/pacs +/data/ +/.snakemake/ +/dist +/domainlab.egg-info +/runs +/slurm_errors.txt \ No newline at end of file diff --git a/docs/doc_benchmark.md b/docs/doc_benchmark.md index 41b19bffb..ec73fb36e 100644 --- a/docs/doc_benchmark.md +++ b/docs/doc_benchmark.md @@ -74,10 +74,10 @@ hyperparameter sampling and pytorch. The following script will help to find out which job has failed and the error message, so that you could direct to the specific log file ```cluster -bash ./sh_list_error.sh ./zoutput/slurm_logs +bash ./sh_list_error.sh ./zoutput/benchmarks/[output folder of the sepcifed benchmark in the yaml file]/slurm_logs ``` #### Map between slurm job id and sampled hyperparameter index -suppose the slurm job id is 14144163, one could the corresponding log file in `./zoutput/slurm_logs` folder via +suppose the slurm job id is 14144163, one could the corresponding log file in `./zoutput/[output folder of the sepcifed benchmark in the yaml file]/slurm_logs` folder via `find . | grep -i "14144163"` the results can be diff --git a/docs/doc_usage_cmd.md b/docs/doc_usage_cmd.md index 7230fec25..6ee916f06 100644 --- a/docs/doc_usage_cmd.md +++ b/docs/doc_usage_cmd.md @@ -21,7 +21,34 @@ To run DomainLab, the minimum necessary parameters are: ### Advanced Configuration - **Learning Rate (`--lr`):** Set the training learning rate. -- **Regularization (`--gamma_reg`):** Weight of regularization loss. +- **Regularization (`--gamma_reg`):** Sets the weight of the regularization + loss. This parameter can be configured either as + a single value applied to individual classes, + or using a dictionary to specify different + weights for different models and trainers. + + - **Command Line Usage:** + - For a single value: `python script.py --gamma_reg=0.1` + - For multiple values: `python script.py --gamma_reg='default=0.1,dann=0.05,jigen=0.2'` + + - **YAML Configuration:** + - For a single value: + + ```yaml + gamma_reg: 0.1 + ``` + + - For different values: + + ```yaml + gamma_reg: + dann: 0.05 + dial: 0.2 + default: 0.1 # value for every other instance + ``` +Gamma reg is available for the trainers, as well as the +dann and jigen model. + - **Early Stopping (`--es`):** Steps for early stopping. - **Random Seed (`--seed`):** Seed for reproducibility. - **CUDA Options (`--nocu`, `--device`):** Configure CUDA usage and device settings. diff --git a/domainlab/algos/builder_dann.py b/domainlab/algos/builder_dann.py index 65b26a62a..73b373c15 100644 --- a/domainlab/algos/builder_dann.py +++ b/domainlab/algos/builder_dann.py @@ -13,6 +13,7 @@ from domainlab.compos.zoo_nn import FeatExtractNNBuilderChainNodeGetter from domainlab.models.model_dann import mk_dann from domainlab.utils.utils_cuda import get_device +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg class NodeAlgoBuilderDANN(NodeAlgoBuilder): @@ -55,7 +56,7 @@ def init_business(self, exp): model = mk_dann(list_str_y=task.list_str_y, net_classifier=net_classifier)( list_d_tr=task.list_domain_tr, - alpha=args.gamma_reg, + alpha=get_gamma_reg(args, 'dann'), net_encoder=net_encoder, net_discriminator=net_discriminator, builder=self) diff --git a/domainlab/algos/builder_jigen1.py b/domainlab/algos/builder_jigen1.py index e899e32f2..de671affe 100644 --- a/domainlab/algos/builder_jigen1.py +++ b/domainlab/algos/builder_jigen1.py @@ -15,6 +15,7 @@ from domainlab.dsets.utils_wrapdset_patches import WrapDsetPatches from domainlab.models.model_jigen import mk_jigen from domainlab.utils.utils_cuda import get_device +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg class NodeAlgoBuilderJiGen(NodeAlgoBuilder): @@ -56,7 +57,7 @@ def init_business(self, exp): model = mk_jigen( list_str_y=task.list_str_y, net_classifier=net_classifier)( - coeff_reg=args.gamma_reg, + coeff_reg=get_gamma_reg(args, 'jigen'), net_encoder=net_encoder, net_classifier_permutation=net_classifier_perm, n_perm=args.nperm, diff --git a/domainlab/algos/trainers/a_trainer.py b/domainlab/algos/trainers/a_trainer.py index d9bda1513..f5fce7c16 100644 --- a/domainlab/algos/trainers/a_trainer.py +++ b/domainlab/algos/trainers/a_trainer.py @@ -258,3 +258,11 @@ def dset_decoration_args_algo(self, args, ddset): if self._decoratee is not None: return self._decoratee.dset_decoration_args_algo(args, ddset) return ddset + + def print_parameters(self): + """ + Function to print all parameters of the object. + Can be used to print the parameters of any child class + """ + params = vars(self) + print(f"Parameters of {type(self).__name__}: {params}") diff --git a/domainlab/algos/trainers/train_dial.py b/domainlab/algos/trainers/train_dial.py index 75a5e34f0..4fe700f45 100644 --- a/domainlab/algos/trainers/train_dial.py +++ b/domainlab/algos/trainers/train_dial.py @@ -5,6 +5,7 @@ from torch.autograd import Variable from domainlab.algos.trainers.train_basic import TrainerBasic +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg class TrainerDIAL(TrainerBasic): @@ -49,4 +50,4 @@ def _cal_reg_loss(self, tensor_x, tensor_y, tensor_d, others=None): tensor_x_adv = self.gen_adversarial(self.device, tensor_x, tensor_y) tensor_x_batch_adv_no_grad = Variable(tensor_x_adv, requires_grad=False) loss_dial = self.model.cal_task_loss(tensor_x_batch_adv_no_grad, tensor_y) - return [loss_dial], [self.aconf.gamma_reg] + return [loss_dial], [get_gamma_reg(self.aconf, self.name)] diff --git a/domainlab/algos/trainers/train_fishr.py b/domainlab/algos/trainers/train_fishr.py index 1a11e3780..3580a0721 100644 --- a/domainlab/algos/trainers/train_fishr.py +++ b/domainlab/algos/trainers/train_fishr.py @@ -13,6 +13,7 @@ backpack = None from domainlab.algos.trainers.train_basic import TrainerBasic +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg class TrainerFishr(TrainerBasic): @@ -39,7 +40,7 @@ def tr_epoch(self, epoch): dict_layerwise_var_var_grads_sum = \ {key: val.sum() for key, val in dict_layerwise_var_var_grads.items()} loss_fishr = sum(dict_layerwise_var_var_grads_sum.values()) - loss = sum(list_loss_erm) + self.aconf.gamma_reg * loss_fishr + loss = sum(list_loss_erm) + get_gamma_reg(self.aconf, self.name) * loss_fishr loss.backward() self.optimizer.step() self.epo_loss_tr += loss.detach().item() diff --git a/domainlab/algos/trainers/train_irm.py b/domainlab/algos/trainers/train_irm.py new file mode 100644 index 000000000..0da2d0bde --- /dev/null +++ b/domainlab/algos/trainers/train_irm.py @@ -0,0 +1,70 @@ +""" +use random start to generate adversarial images +""" +import torch +from torch import autograd +from torch.nn import functional as F +from domainlab.algos.trainers.train_basic import TrainerBasic + + +class TrainerIRM(TrainerBasic): + """ + IRMv1 split a minibatch into half, and use an unbiased estimate of the + squared gradient norm via inner product + $$\\delta_{w|w=1} \\ell(w\\dot \\Phi(X^{e, i}), Y^{e, i})$$ + of dimension dim(Grad) + with + $$\\delta_{w|w=1} \\ell(w\\dot \\Phi(X^{e, j}), Y^{e, j})$$ + of dimension dim(Grad) + For more details, see section 3.2 and Appendix D of : + Arjovsky et al., “Invariant Risk Minimization.” + """ + def tr_epoch(self, epoch): + list_loaders = list(self.dict_loader_tr.values()) + loaders_zip = zip(*list_loaders) + self.model.train() + self.epo_loss_tr = 0 + + for ind_batch, tuple_data_domains_batch in enumerate(loaders_zip): + self.optimizer.zero_grad() + list_domain_loss_erm = [] + list_domain_reg = [] + for batch_domain_e in tuple_data_domains_batch: + tensor_x, tensor_y, tensor_d, *others = batch_domain_e + tensor_x, tensor_y, tensor_d = \ + tensor_x.to(self.device), tensor_y.to(self.device), \ + tensor_d.to(self.device) + list_domain_loss_erm.append( + self.model.cal_task_loss(tensor_x, tensor_y)) + list_1ele_loss_irm, _ = \ + self._cal_reg_loss(tensor_x, tensor_y, tensor_d, others) + list_domain_reg += list_1ele_loss_irm + loss = torch.sum(torch.stack(list_domain_loss_erm)) + \ + self.aconf.gamma_reg * torch.sum(torch.stack(list_domain_reg)) + loss.backward() + self.optimizer.step() + self.epo_loss_tr += loss.detach().item() + self.after_batch(epoch, ind_batch) + + flag_stop = self.observer.update(epoch) # notify observer + return flag_stop + + def _cal_phi(self, tensor_x): + logits = self.model.cal_logit_y(tensor_x) + return logits + + def _cal_reg_loss(self, tensor_x, tensor_y, tensor_d, others=None): + """ + Let trainer behave like a model, so that other trainer could use it + """ + _ = tensor_d + _ = others + y = tensor_y + phi = self._cal_phi(tensor_x) + dummy_w_scale = torch.tensor(1.).to(tensor_x.device).requires_grad_() + loss_1 = F.cross_entropy(phi[::2] * dummy_w_scale, y[::2]) + loss_2 = F.cross_entropy(phi[1::2] * dummy_w_scale, y[1::2]) + grad_1 = autograd.grad(loss_1, [dummy_w_scale], create_graph=True)[0] + grad_2 = autograd.grad(loss_2, [dummy_w_scale], create_graph=True)[0] + loss_irm = torch.sum(grad_1 * grad_2) + return [loss_irm], [self.aconf.gamma_reg] diff --git a/domainlab/algos/trainers/train_matchdg.py b/domainlab/algos/trainers/train_matchdg.py index 6a3edd996..72c14ab83 100644 --- a/domainlab/algos/trainers/train_matchdg.py +++ b/domainlab/algos/trainers/train_matchdg.py @@ -13,6 +13,7 @@ ) from domainlab.tasks.utils_task_dset import DsetIndDecorator4XYD from domainlab.utils.logger import Logger +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg class TrainerMatchDG(AbstractTrainer): @@ -36,7 +37,7 @@ def init_business( self.base_domain_size = get_base_domain_size4match_dg(self.task) self.epo_loss_tr = 0 self.flag_erm = flag_erm - self.lambda_ctr = self.aconf.gamma_reg + self.lambda_ctr = get_gamma_reg(aconf, self.name) self.mk_match_tensor(epoch=0) self.flag_match_tensor_sweep_over = False self.tuple_tensor_ref_domain2each_y = None diff --git a/domainlab/algos/trainers/train_mldg.py b/domainlab/algos/trainers/train_mldg.py index 90318286c..e91310adf 100644 --- a/domainlab/algos/trainers/train_mldg.py +++ b/domainlab/algos/trainers/train_mldg.py @@ -10,6 +10,7 @@ from domainlab.algos.trainers.train_basic import TrainerBasic from domainlab.tasks.utils_task import mk_loader from domainlab.tasks.utils_task_dset import DsetZip +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg class TrainerMLDG(AbstractTrainer): @@ -108,7 +109,7 @@ def tr_epoch(self, epoch): loss = ( loss_source_task.sum() + source_reg_tr.sum() - + self.aconf.gamma_reg * loss_look_forward.sum() + + get_gamma_reg(self.aconf, self.name) * loss_look_forward.sum() ) # loss.backward() diff --git a/domainlab/algos/trainers/zoo_trainer.py b/domainlab/algos/trainers/zoo_trainer.py index 1cfa15a7f..1800e307c 100644 --- a/domainlab/algos/trainers/zoo_trainer.py +++ b/domainlab/algos/trainers/zoo_trainer.py @@ -7,6 +7,7 @@ from domainlab.algos.trainers.train_matchdg import TrainerMatchDG from domainlab.algos.trainers.train_mldg import TrainerMLDG from domainlab.algos.trainers.train_fishr import TrainerFishr +from domainlab.algos.trainers.train_irm import TrainerIRM class TrainerChainNodeGetter(object): @@ -49,6 +50,7 @@ def __call__(self, lst_candidates=None, default=None, lst_excludes=None): chain = TrainerMatchDG(chain) chain = TrainerMLDG(chain) chain = TrainerFishr(chain) + chain = TrainerIRM(chain) chain = TrainerHyperScheduler(chain) node = chain.handle(self.request) head = node diff --git a/domainlab/arg_parser.py b/domainlab/arg_parser.py index 7c7e004e7..1b8593e8f 100644 --- a/domainlab/arg_parser.py +++ b/domainlab/arg_parser.py @@ -12,6 +12,37 @@ from domainlab.models.args_vae import add_args2parser_vae from domainlab.utils.logger import Logger +class ParseValuesOrKeyValuePairs(argparse.Action): + """Class used for arg parsing where values are provided in a key value format""" + + def __call__(self, parser: argparse.ArgumentParser, + namespace: argparse.Namespace, values: str, option_string: str = None): + """ + Handle parsing of key value pairs, or a single value instead + + Args: + parser (argparse.ArgumentParser): The ArgumentParser object. + namespace (argparse.Namespace): The namespace object to store parsed values. + values (str): The string containing key=value pairs or a single float value. + option_string (str, optional): The option string that triggered this action (unused). + + Raises: + ValueError: If the values cannot be parsed to float. + """ + if "=" in values: + my_dict = {} + for kv in values.split(","): + k, v = kv.split("=") + try: + my_dict[k.strip()] = float(v.strip()) + except ValueError: + raise ValueError(f"Invalid value in key-value pair: '{kv}', must be float") + setattr(namespace, self.dest, my_dict) + else: + try: + setattr(namespace, self.dest, float(values)) + except ValueError: + raise ValueError(f"Invalid value for {self.dest}: '{values}', must be float") def mk_parser_main(): """ @@ -31,7 +62,13 @@ def mk_parser_main(): parser.add_argument("--lr", type=float, default=1e-4, help="learning rate") parser.add_argument( - "--gamma_reg", type=float, default=0.1, help="weight of regularization loss" + "--gamma_reg", + default=0.1, + help="weight of regularization loss in the form of $$\ell(\cdot) + \mu \times R(\cdot)$$ \ + can specify per model as 'default=3.0, dann=1.0,jigen=2.0', where default refer to gamma for trainer \ + note diva is implemented $$\ell(\cdot) + \mu \times R(\cdot)$$ \ + so diva does not have gamma_reg", + action=ParseValuesOrKeyValuePairs ) parser.add_argument("--es", type=int, default=1, help="early stop steps") diff --git a/domainlab/exp_protocol/aggregate_results.py b/domainlab/exp_protocol/aggregate_results.py index d67cf5a0a..2d72316bb 100644 --- a/domainlab/exp_protocol/aggregate_results.py +++ b/domainlab/exp_protocol/aggregate_results.py @@ -43,6 +43,7 @@ def agg_from_directory(input_dir: str, output_file: str): def agg_main(bm_dir: str, skip_plotting: bool = False): """Aggregates partial results and generate plots.""" + bm_dir.rstrip("/") agg_output = f"{bm_dir}/results.csv" agg_input = f"{bm_dir}/rule_results" agg_from_directory(agg_input, agg_output) diff --git a/domainlab/exp_protocol/benchmark.smk b/domainlab/exp_protocol/benchmark.smk index fcc9eb4f3..84661ee61 100644 --- a/domainlab/exp_protocol/benchmark.smk +++ b/domainlab/exp_protocol/benchmark.smk @@ -72,6 +72,8 @@ rule parameter_sampling: expand("{path}", path=config_path) output: dest=expand("{output_dir}/hyperparameters.csv", output_dir=config["output_dir"]) + # resources: + # log_dir="slurm_logs_test" params: sampling_seed=os.environ["DOMAINLAB_CUDA_HYPERPARAM_SEED"] run: @@ -159,6 +161,8 @@ rule agg_results: # put different csv file in a big csv file input: exp_results=experiment_result_files + # resources: + # log_dir="slurm_logs_test" output: out_file=expand("{output_dir}/results.csv", output_dir=config["output_dir"]) run: diff --git a/domainlab/models/a_model.py b/domainlab/models/a_model.py index beb867167..71b0db334 100644 --- a/domainlab/models/a_model.py +++ b/domainlab/models/a_model.py @@ -178,3 +178,35 @@ def dset_decoration_args_algo(self, args, ddset): if self._decoratee is not None: return self._decoratee.dset_decoration_args_algo(args, ddset) return ddset + + @property + def p_na_prefix(self): + """ + common prefix for Models + """ + return "Model" + + @property + def name(self): + """ + get the name of the algorithm + """ + na_prefix = self.p_na_prefix + len_prefix = len(na_prefix) + na_class = type(self).__name__ + if na_class[:len_prefix] != na_prefix: + raise RuntimeError( + "Model builder node class must start with ", + na_prefix, + "the current class is named: ", + na_class, + ) + return type(self).__name__[len_prefix:].lower() + + def print_parameters(self): + """ + Function to print all parameters of the object. + Can be used to print the parameters of every child class. + """ + params = vars(self) + print(f"Parameters of {type(self).__name__}: {params}") diff --git a/domainlab/models/model_dann.py b/domainlab/models/model_dann.py index 2abd3feda..59a619e7e 100644 --- a/domainlab/models/model_dann.py +++ b/domainlab/models/model_dann.py @@ -85,13 +85,15 @@ def hyper_update(self, epoch, fun_scheduler): dict_rst = fun_scheduler( epoch ) # the __call__ method of hyperparameter scheduler - self.alpha = dict_rst["alpha"] + self.alpha = dict_rst[self.name + "_alpha"] def hyper_init(self, functor_scheduler): """hyper_init. :param functor_scheduler: """ - return functor_scheduler(trainer=None, alpha=self.alpha) + parameters = {} + parameters[self.name + "_alpha"] = self.alpha + return functor_scheduler(trainer=None, **parameters) def _cal_reg_loss(self, tensor_x, tensor_y, tensor_d, others): _ = others diff --git a/domainlab/models/model_diva.py b/domainlab/models/model_diva.py index b67272784..362c14518 100644 --- a/domainlab/models/model_diva.py +++ b/domainlab/models/model_diva.py @@ -98,9 +98,9 @@ def hyper_update(self, epoch, fun_scheduler): :param fun_scheduler: """ dict_rst = fun_scheduler(epoch) - self.beta_d = dict_rst["beta_d"] - self.beta_y = dict_rst["beta_y"] - self.beta_x = dict_rst["beta_x"] + self.beta_d = dict_rst[self.name + "_beta_d"] + self.beta_y = dict_rst[self.name + "_beta_x"] + self.beta_x = dict_rst[self.name + "_beta_y"] def hyper_init(self, functor_scheduler): """ @@ -108,8 +108,12 @@ def hyper_init(self, functor_scheduler): :param functor_scheduler: the class name of the scheduler """ + parameters = {} + parameters[self.name + "_beta_d"] = self.beta_d + parameters[self.name + "_beta_y"] = self.beta_y + parameters[self.name + "_beta_x"] = self.beta_x return functor_scheduler( - trainer=None, beta_d=self.beta_d, beta_y=self.beta_y, beta_x=self.beta_x + trainer=None, **parameters ) def _cal_reg_loss(self, tensor_x, tensor_y, tensor_d, others=None): diff --git a/domainlab/models/model_hduva.py b/domainlab/models/model_hduva.py index 61411982e..5c7bb290d 100644 --- a/domainlab/models/model_hduva.py +++ b/domainlab/models/model_hduva.py @@ -66,10 +66,10 @@ def hyper_update(self, epoch, fun_scheduler): dict_rst = fun_scheduler( epoch ) # the __call__ function of hyper-para-scheduler object - self.beta_d = dict_rst["beta_d"] - self.beta_y = dict_rst["beta_y"] - self.beta_x = dict_rst["beta_x"] - self.beta_t = dict_rst["beta_t"] + self.beta_d = dict_rst[self.name + "_beta_d"] + self.beta_y = dict_rst[self.name + "_beta_y"] + self.beta_x = dict_rst[self.name + "_beta_x"] + self.beta_t = dict_rst[self.name + "_beta_t"] def hyper_init(self, functor_scheduler): """hyper_init. @@ -78,12 +78,13 @@ def hyper_init(self, functor_scheduler): # calling the constructor of the hyper-parameter-scheduler class, so that this scheduler # class build a dictionary {"beta_d":self.beta_d, "beta_y":self.beta_y} # constructor signature is def __init__(self, **kwargs): + parameters = {} + parameters[self.name + "_beta_d"] = self.beta_d + parameters[self.name + "_beta_y"] = self.beta_y + parameters[self.name + "_beta_x"] = self.beta_x + parameters[self.name + "_beta_t"] = self.beta_t return functor_scheduler( - trainer=None, - beta_d=self.beta_d, - beta_y=self.beta_y, - beta_x=self.beta_x, - beta_t=self.beta_t, + trainer=None, **parameters ) @store_args diff --git a/domainlab/utils/generate_benchmark_plots.py b/domainlab/utils/generate_benchmark_plots.py index 420bcd76c..9c0be5fae 100644 --- a/domainlab/utils/generate_benchmark_plots.py +++ b/domainlab/utils/generate_benchmark_plots.py @@ -90,7 +90,8 @@ def gen_plots(dataframe: pd.DataFrame, output_dir: str, use_param_index: bool): ['param_index','task',' algo',' epos',' te_d',' seed',' params',' acc','precision',...] """ os.makedirs(output_dir, exist_ok=True) - obj = dataframe.columns[G_DF_PLOT_COL_METRIC_START:G_DF_PLOT_COL_METRIC_END] + pos_numeric_end = min(G_DF_PLOT_COL_METRIC_END, dataframe.shape[1]) + obj = dataframe.columns[G_DF_PLOT_COL_METRIC_START:pos_numeric_end] # boxplots for objective in obj: boxplot( @@ -267,7 +268,8 @@ def scatterplot_matrix( but also between the parameter setups """ dataframe = dataframe_in.copy() - index = list(range(G_DF_PLOT_COL_METRIC_START, G_DF_PLOT_COL_METRIC_END)) + pos_numeric_end = min(G_DF_PLOT_COL_METRIC_END, dataframe.shape[1]) + index = list(range(G_DF_PLOT_COL_METRIC_START, pos_numeric_end)) if distinguish_param_setups: dataframe_ = dataframe.iloc[:, index] dataframe_.insert( @@ -280,7 +282,8 @@ def scatterplot_matrix( g_p = sns.pairplot(data=dataframe_, hue="label", corner=True, kind=kind) else: - index_ = list(range(G_DF_PLOT_COL_METRIC_START, G_DF_PLOT_COL_METRIC_END)) + pos_numeric_end = min(G_DF_PLOT_COL_METRIC_END, dataframe.shape[1]) + index_ = list(range(G_DF_PLOT_COL_METRIC_START, pos_numeric_end)) index_.insert(0, G_DF_TASK_COL) dataframe_ = dataframe.iloc[:, index_] @@ -417,7 +420,8 @@ def radar_plot(dataframe_in, file=None, distinguish_hyperparam=True): else: dataframe.insert(0, "label", dataframe[COLNAME_METHOD]) # we need "G_DF_PLOT_COL_METRIC_START + 1" as we did insert the columns 'label' at index 0 - index = list(range(G_DF_PLOT_COL_METRIC_START + 1, G_DF_PLOT_COL_METRIC_END)) + pos_numeric_end = min(G_DF_PLOT_COL_METRIC_END, dataframe.shape[1]) + index = list(range(G_DF_PLOT_COL_METRIC_START + 1, pos_numeric_end)) num_lines = len(dataframe["label"].unique()) _, axis = plt.subplots( figsize=(9, 9 + (0.28 * num_lines)), subplot_kw=dict(polar=True) diff --git a/domainlab/utils/hyperparameter_retrieval.py b/domainlab/utils/hyperparameter_retrieval.py new file mode 100644 index 000000000..5a1960e2e --- /dev/null +++ b/domainlab/utils/hyperparameter_retrieval.py @@ -0,0 +1,18 @@ +""" +retrieval for hyperparameters +""" + +def get_gamma_reg(args, component_name): + """ + Retrieves either a shared gamma regularization, or individual ones for each specified object + """ + gamma_reg = args.gamma_reg + if isinstance(gamma_reg, dict): + if component_name in gamma_reg: + return gamma_reg[component_name] + if 'default' in gamma_reg: + return gamma_reg['default'] + raise ValueError("""If a gamma_reg dict is specified, + but no value set for every model and trainer, + a default value must be specified.""") + return gamma_reg # Return the single value if it's not a dictionary diff --git a/examples/benchmark/benchmark_pacs_resnet_model.yaml b/examples/benchmark/benchmark_pacs_resnet_model.yaml index 7c9b9dbd7..c3bfde043 100644 --- a/examples/benchmark/benchmark_pacs_resnet_model.yaml +++ b/examples/benchmark/benchmark_pacs_resnet_model.yaml @@ -33,13 +33,13 @@ domainlab_args: Shared params: num_shared_param_samples: 9 gamma_y: - min: 1e4 + min: 1 max: 1e8 step: 1000 distribution: loguniform gamma_d: - min: 1e4 + min: 1 max: 1e8 step: 1000 distribution: loguniform diff --git a/examples/conf/vlcs_diva_mldg_dial.yaml b/examples/conf/vlcs_diva_mldg_dial.yaml index 5ed10d0c5..e24cfd22e 100644 --- a/examples/conf/vlcs_diva_mldg_dial.yaml +++ b/examples/conf/vlcs_diva_mldg_dial.yaml @@ -5,7 +5,10 @@ val_threshold: 0.8 # threashold before which training does not model: dann_diva # combine model DANN with DIVA epos: 1 # number of epochs trainer: mldg_dial # combine trainer MLDG and DIAL -gamma_reg: 1.0 # hyperparameter of DANN +gamma_reg: + default: 1.0 + dann: 1.5 +# in this case, mldg and dial get the default gamma_reg value 1.0 gamma_y: 700000.0 # hyperparameter of diva gamma_d: 100000.0 # hyperparameter of diva npath: examples/nets/resnet.py # neural network for class classification diff --git a/examples/yaml/slurm/config.yaml b/examples/yaml/slurm/config.yaml index e180df74d..642367adc 100644 --- a/examples/yaml/slurm/config.yaml +++ b/examples/yaml/slurm/config.yaml @@ -1,6 +1,6 @@ # This yaml file has been adapted from https://github.com/jdblischak/smk-simple-slurm cluster: - mkdir -p zoutput/slurm_logs/{rule} && + mkdir -p $logdir/{rule} && sbatch --partition=gpu_p --qos=gpu_normal @@ -10,8 +10,8 @@ cluster: -c 2 --mem=160G --job-name=smk-{rule}-{wildcards} - --output=zoutput/slurm_logs/{rule}/{rule}-{wildcards}-%j.out - --error=zoutput/slurm_logs/{rule}/{rule}-{wildcards}-%j.err + --output=$logdir/{rule}/{rule}-{wildcards}-%j.out + --error=$logdir/{rule}/{rule}-{wildcards}-%j.err default-resources: - partition=gpu_p - qos=gpu_normal diff --git a/poetry.lock b/poetry.lock deleted file mode 100644 index 6e8b0c48e..000000000 --- a/poetry.lock +++ /dev/null @@ -1,1561 +0,0 @@ -[[package]] -name = "atomicwrites" -version = "1.4.1" -description = "Atomic file writes." -category = "dev" -optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" - -[[package]] -name = "attrs" -version = "23.2.0" -description = "Classes Without Boilerplate" -category = "dev" -optional = false -python-versions = ">=3.7" - -[package.extras] -cov = ["attrs[tests]", "coverage[toml] (>=5.3)"] -dev = ["attrs[tests]", "pre-commit"] -docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier", "zope-interface"] -tests = ["attrs[tests-no-zope]", "zope-interface"] -tests-mypy = ["mypy (>=1.6)", "pytest-mypy-plugins"] -tests-no-zope = ["attrs[tests-mypy]", "cloudpickle", "hypothesis", "pympler", "pytest (>=4.3.0)", "pytest-xdist[psutil]"] - 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@@ -1,6 +1,6 @@ [tool.poetry] name = "domainlab" -version = "0.6.3" +version = "0.6.4" readme = "README.md" repository = "https://github.com/marrlab/DomainLab" homepage = "https://marrlab.github.io/DomainLab/" @@ -9,9 +9,10 @@ authors = ["Xudong Sun ", "Carla Feistner", "Alexej Gos [tool.poetry.dependencies] python = "^3.9" +setuptools = "^69.5.1" numpy = "^1.23.4" -matplotlib = "^3.6.1" -seaborn = "0.12.2" +matplotlib = "^3.9.0" +seaborn = "^0.13.2" torchmetrics = "^0.10.0" torch = "^1.12.0" torchvision = "^0.13.0" diff --git a/requirements.txt b/requirements.txt index 88c294a6e..fc2fc3fd3 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,45 +1,46 @@ backpack-for-pytorch==1.6.0 ; python_version >= "3.9" and python_version < "4.0" beautifulsoup4==4.12.3 ; python_version >= "3.9" and python_version < "4.0" -certifi==2023.11.17 ; python_version >= "3.9" and python_version < "4.0" +certifi==2024.6.2 ; python_version >= "3.9" and python_version < "4.0" charset-normalizer==3.3.2 ; python_version >= "3.9" and python_version < "4.0" colorama==0.4.6 ; python_version >= "3.9" and python_version < "4.0" and platform_system == "Windows" -contourpy==1.2.0 ; python_version >= "3.9" and python_version < "4.0" +contourpy==1.2.1 ; python_version >= "3.9" and python_version < "4.0" cycler==0.12.1 ; python_version >= "3.9" and python_version < "4.0" -einops==0.7.0 ; python_version >= "3.9" and python_version < "4.0" -filelock==3.13.1 ; python_version >= "3.9" and python_version < "4.0" -fonttools==4.47.2 ; python_version >= "3.9" and python_version < "4.0" +einops==0.8.0 ; python_version >= "3.9" and python_version < "4.0" +filelock==3.15.4 ; python_version >= "3.9" and python_version < "4.0" +fonttools==4.53.0 ; python_version >= "3.9" and python_version < "4.0" gdown==4.7.3 ; python_version >= "3.9" and python_version < "4.0" -idna==3.6 ; python_version >= "3.9" and python_version < "4.0" -importlib-resources==6.1.1 ; python_version >= "3.9" and python_version < "3.10" -joblib==1.3.2 ; python_version >= "3.9" and python_version < "4.0" +idna==3.7 ; python_version >= "3.9" and python_version < "4.0" +importlib-resources==6.4.0 ; python_version >= "3.9" and python_version < "3.10" +joblib==1.4.2 ; python_version >= "3.9" and python_version < "4.0" kiwisolver==1.4.5 ; python_version >= "3.9" and python_version < "4.0" markdown-it-py==3.0.0 ; python_version >= "3.9" and python_version < "4.0" -matplotlib==3.8.2 ; python_version >= "3.9" and python_version < "4.0" +matplotlib==3.9.0 ; python_version >= "3.9" and python_version < "4.0" mdurl==0.1.2 ; python_version >= "3.9" and python_version < "4.0" -numpy==1.26.3 ; python_version < "4.0" and python_version >= "3.9" -packaging==23.2 ; python_version >= "3.9" and python_version < "4.0" +numpy==1.26.4 ; python_version < "4.0" and python_version >= "3.9" +packaging==24.1 ; python_version >= "3.9" and python_version < "4.0" pandas==1.5.3 ; python_version >= "3.9" and python_version < "4.0" pillow==9.5.0 ; python_version >= "3.9" and python_version < "4.0" -pygments==2.17.2 ; python_version >= "3.9" and python_version < "4.0" -pyparsing==3.1.1 ; python_version >= "3.9" and python_version < "4.0" +pygments==2.18.0 ; python_version >= "3.9" and python_version < "4.0" +pyparsing==3.1.2 ; python_version >= "3.9" and python_version < "4.0" pysocks==1.7.1 ; python_version >= "3.9" and python_version < "4.0" -python-dateutil==2.8.2 ; python_version >= "3.9" and python_version < "4.0" -pytz==2023.4 ; python_version >= "3.9" and python_version < "4.0" +python-dateutil==2.9.0.post0 ; python_version >= "3.9" and python_version < "4.0" +pytz==2024.1 ; python_version >= "3.9" and python_version < "4.0" pyyaml==6.0.1 ; python_version >= "3.9" and python_version < "4.0" -requests==2.31.0 ; python_version >= "3.9" and python_version < "4.0" -requests[socks]==2.31.0 ; python_version >= "3.9" and python_version < "4.0" -rich==13.7.0 ; python_version >= "3.9" and python_version < "4.0" -scikit-learn==1.4.0 ; python_version >= "3.9" and python_version < "4.0" -scipy==1.12.0 ; python_version >= "3.9" and python_version < "4.0" +requests==2.32.3 ; python_version >= "3.9" and python_version < "4.0" +requests[socks]==2.32.3 ; python_version >= "3.9" and python_version < "4.0" +rich==13.7.1 ; python_version >= "3.9" and python_version < "4.0" +scikit-learn==1.5.0 ; python_version >= "3.9" and python_version < "4.0" +scipy==1.13.1 ; python_version >= "3.9" and python_version < "4.0" seaborn==0.12.2 ; python_version >= "3.9" and python_version < "4.0" +setuptools==69.5.1 ; python_version >= "3.9" and python_version < "4.0" six==1.16.0 ; python_version >= "3.9" and python_version < "4.0" soupsieve==2.5 ; python_version >= "3.9" and python_version < "4.0" -threadpoolctl==3.2.0 ; python_version >= "3.9" and python_version < "4.0" +threadpoolctl==3.5.0 ; python_version >= "3.9" and python_version < "4.0" torch==1.12.1 ; python_version >= "3.9" and python_version < "4.0" torchmetrics==0.10.3 ; python_version >= "3.9" and python_version < "4.0" torchvision==0.13.1 ; python_version >= "3.9" and python_version < "4.0" -tqdm==4.66.1 ; python_version >= "3.9" and python_version < "4.0" -typing-extensions==4.9.0 ; python_version >= "3.9" and python_version < "4.0" -unfoldnd==0.2.1 ; python_version >= "3.9" and python_version < "4.0" -urllib3==2.1.0 ; python_version >= "3.9" and python_version < "4.0" -zipp==3.17.0 ; python_version >= "3.9" and python_version < "3.10" +tqdm==4.66.4 ; python_version >= "3.9" and python_version < "4.0" +typing-extensions==4.12.2 ; python_version >= "3.9" and python_version < "4.0" +unfoldnd==0.2.2 ; python_version >= "3.9" and python_version < "4.0" +urllib3==2.2.2 ; python_version >= "3.9" and python_version < "4.0" +zipp==3.19.2 ; python_version >= "3.9" and python_version < "3.10" diff --git a/run_benchmark_slurm.sh b/run_benchmark_slurm.sh index 61615198a..5ad2b94ff 100755 --- a/run_benchmark_slurm.sh +++ b/run_benchmark_slurm.sh @@ -1,35 +1,38 @@ #!/bin/bash -timestamp() { -# date +"%T" # current time - date +"%Y-%m-%d_%H-%M-%S" -} +# Source the common functions script +source scripts/sh_benchmark_utils.sh # CONFIGFILE="examples/yaml/test_helm_benchmark.yaml" CONFIGFILE=$1 -export DOMAINLAB_CUDA_START_SEED=$2 - -if [ -z "$2" ] -then - echo "argument 2: DOMAINLAB_CUDA_START_SEED empty, will set to 0" - export DOMAINLAB_CUDA_START_SEED=0 - # in fact, the smk code will hash empty string to zero, see standalone script, - # but here we just want to ensure the seed is 0 without worrying a different - # behavior of the hash function -else - export DOMAINLAB_CUDA_START_SEED=$2 -fi +logfile=$(create_log_file) +echo "Configuration file: $CONFIGFILE" +echo "verbose log: $logfile" +# Check if the second argument is empty and provide feedback +if [ -z "$2" ]; then + echo "argument 2: DOMAINLAB_CUDA_START_SEED empty, will set to 0" +fi +# Set DOMAINLAB_CUDA_START_SEED to the second command-line argument if provided, +# otherwise, default to 0. +DOMAINLAB_CUDA_START_SEED=${2:-0} +export DOMAINLAB_CUDA_START_SEED +echo "argument 2: DOMAINLAB_CUDA_START_SEED=$DOMAINLAB_CUDA_START_SEED" # ensure all runs sample the same hyperparameters export DOMAINLAB_CUDA_HYPERPARAM_SEED=0 export NUMBER_GPUS=1 -logdir="zoutput/logs" -mkdir -p $logdir -logfile="$logdir/$(timestamp).out" -echo "Configuration file: $CONFIGFILE" -echo "starting seed is: $DOMAINLAB_CUDA_START_SEED" -echo "verbose log: $logfile" + +results_dir=$(extract_output_dir "$CONFIGFILE") + +echo "Starting seed is: $DOMAINLAB_CUDA_START_SEED" +echo "Hyperparameter seed is: $DOMAINLAB_CUDA_HYPERPARAM_SEED" +echo "Number of GPUs: $NUMBER_GPUS" +echo "Results will be stored in: $results_dir" + # Helmholtz -snakemake --profile "examples/yaml/slurm" --config yaml_file=$CONFIGFILE --keep-going --keep-incomplete --notemp --cores 3 -s "domainlab/exp_protocol/benchmark.smk" --configfile "$CONFIGFILE" 2>&1 | tee "$logfile" +export logdir="${results_dir}/slurm_logs/" +echo "slurm logs going into ${logdir}" +# snakemake --config logdir="zoutput/benchmark/logs" does not seem to work +snakemake --profile "examples/yaml/slurm" --config yaml_file="$CONFIGFILE" --keep-going --keep-incomplete --notemp --cores 3 -s "domainlab/exp_protocol/benchmark.smk" --configfile "$CONFIGFILE" --config output_dir="$results_dir" 2>&1 | tee "$logfile" diff --git a/run_benchmark_standalone.sh b/run_benchmark_standalone.sh index 8f712d1d1..72214b340 100755 --- a/run_benchmark_standalone.sh +++ b/run_benchmark_standalone.sh @@ -1,52 +1,41 @@ -set -e - -timestamp() { -# date +"%T" # current time - date +"%Y-%m-%d_%H-%M-%S" -} - +#!/bin/bash -logdir="zoutput/logs" -mkdir -p $logdir -logfile="$logdir/$(timestamp).out" -echo "verbose log: $logfile" +set -e +# Source the common functions script +source scripts/sh_benchmark_utils.sh CONFIGFILE=$1 +logfile=$(create_log_file) +echo "Configuration file: $CONFIGFILE" +echo "verbose log: $logfile" - - -echo "argument 2=$2" -if [ -z "$2" ] -then - echo "argument 2: DOMAINLAB_CUDA_START_SEED empty" - echo "empty string will be hashed into 0" -fi - -export DOMAINLAB_CUDA_START_SEED=$2 - - -echo "argument 3: $3" - -if [ -z "$3" ] -then - echo "argument 3: DOMAINLAB_CUDA_HYPERPARAM_SEED empty, will set to 0" - export DOMAINLAB_CUDA_HYPERPARAM_SEED=0 -else - export DOMAINLAB_CUDA_HYPERPARAM_SEED=$3 +# Check if the second argument is empty and provide feedback +if [ -z "$2" ]; then + echo "argument 2: DOMAINLAB_CUDA_START_SEED empty, will set to 0" fi +# Set DOMAINLAB_CUDA_START_SEED to the second command-line argument if provided, +# otherwise, default to 0. +DOMAINLAB_CUDA_START_SEED=${2:-0} +export DOMAINLAB_CUDA_START_SEED +echo "argument 2: DOMAINLAB_CUDA_START_SEED=$DOMAINLAB_CUDA_START_SEED" +# Configuring DOMAINLAB_CUDA_HYPERPARAM_SEED +DOMAINLAB_CUDA_HYPERPARAM_SEED=${3:-0} +export DOMAINLAB_CUDA_HYPERPARAM_SEED +echo "argument 3: DOMAINLAB_CUDA_HYPERPARAM_SEED=$DOMAINLAB_CUDA_HYPERPARAM_SEED" echo "argument 4: NUMBER_GPUS=$4" -if [ -z "$4" ] -then - export NUMBER_GPUS=1 - echo "argument 4: NUMBER_GPUS set to 1" - echo "argument 4: NUMBER_GPUS=$NUMBER_GPUS" -else - export NUMBER_GPUS=$4 -fi +NUMBER_GPUS=${4:-1} +export NUMBER_GPUS +echo "argument 4: NUMBER_GPUS set to ${NUMBER_GPUS}" +results_dir=$(extract_output_dir "$CONFIGFILE") + +echo "Starting seed is: $DOMAINLAB_CUDA_START_SEED" +echo "Hyperparameter seed is: $DOMAINLAB_CUDA_HYPERPARAM_SEED" +echo "Number of GPUs: $NUMBER_GPUS" +echo "Results will be stored in: $results_dir" # -n: dry-run (A dry run is a software testing process where the effects of a possible failure are intentionally mitigated, For example, there is rsync utility for transfer data over some interface, but user can try rsync with dry-run option to check syntax and test communication without data transferring.) # -p: print shell commands @@ -55,14 +44,11 @@ fi # -- configfile: configuration yaml file of the benchmark - - # first display all tasks snakemake --rerun-incomplete --cores 1 -s "domainlab/exp_protocol/benchmark.smk" --configfile "$CONFIGFILE" --keep-going --summary # this will give us a clue first what jobs will be run # second submit the jobs, make sure you have more than 4 cores on your laptop, otherwise adjust the cores -snakemake --config yaml_file=$CONFIGFILE --rerun-incomplete --resources nvidia_gpu=$NUMBER_GPUS --cores 4 -s "domainlab/exp_protocol/benchmark.smk" --configfile "$CONFIGFILE" 2>&1 | tee "$logfile" - +snakemake --config yaml_file="$CONFIGFILE" --rerun-incomplete --resources nvidia_gpu="$NUMBER_GPUS" --cores 4 -s "domainlab/exp_protocol/benchmark.smk" --configfile "$CONFIGFILE" --config output_dir="$results_dir" 2>&1 | tee "$logfile" # snakemake --rerun-incomplete --cores 1 -s "domainlab/exp_protocol/benchmark.smk" --configfile "examples/yaml/demo_benchmark.yaml" # snakemake -np -s "domainlab/exp_protocol/benchmark.smk" --configfile "examples/yaml/demo_benchmark.yaml" diff --git a/ci.sh b/scripts/ci.sh similarity index 100% rename from ci.sh rename to scripts/ci.sh diff --git a/ci_benchmark.sh b/scripts/ci_benchmark.sh similarity index 100% rename from ci_benchmark.sh rename to scripts/ci_benchmark.sh diff --git a/ci_pytest_cov.sh b/scripts/ci_pytest_cov.sh similarity index 100% rename from ci_pytest_cov.sh rename to scripts/ci_pytest_cov.sh diff --git a/ci_run_examples.sh b/scripts/ci_run_examples.sh similarity index 100% rename from ci_run_examples.sh rename to scripts/ci_run_examples.sh diff --git a/clean.sh b/scripts/clean.sh similarity index 100% rename from clean.sh rename to scripts/clean.sh diff --git a/gen_doc.sh b/scripts/gen_doc.sh similarity index 100% rename from gen_doc.sh rename to scripts/gen_doc.sh diff --git a/scripts/sh_benchmark_utils.sh b/scripts/sh_benchmark_utils.sh new file mode 100644 index 000000000..ef1b05876 --- /dev/null +++ b/scripts/sh_benchmark_utils.sh @@ -0,0 +1,27 @@ +#!/bin/bash + +# This script contains common functions used in multiple scripts + +# Function to generate a timestamp +timestamp() { + date +"%Y-%m-%d_%H-%M-%S" +} + +# Function to create a log file with a timestamp in the name +create_log_file() { + local logdir="zoutput/logs" + mkdir -p "$logdir" + local logfile="$logdir/$(timestamp).out" + echo "$logfile" +} + +# Function to extract the output directory from a config file and append a timestamp to it +extract_output_dir() { + local config_file=$1 + local output_dir=$(awk '/output_dir:/ {print $2}' "$config_file") + if [ -z "$output_dir" ]; then + echo "Error: output_dir not specified in $config_file" + exit 1 + fi + echo "${output_dir}_$(timestamp)" +} diff --git a/sh_publish.sh b/scripts/sh_publish.sh similarity index 100% rename from sh_publish.sh rename to scripts/sh_publish.sh diff --git a/setup.py b/setup.py index e185f6377..c56a64115 100644 --- a/setup.py +++ b/setup.py @@ -38,7 +38,7 @@ def copy_dir(dir_path="zdata"): package_data={ "zdata": [f for f in copy_dir()], }, - version="0.6.3", + version="0.6.4", description="Library of modular domain generalization for deep learning", url="https://github.com/marrlab/DomainLab", author="Xudong Sun, et.al.", diff --git a/tests/test_a_model.py b/tests/test_a_model.py new file mode 100644 index 000000000..fac060f06 --- /dev/null +++ b/tests/test_a_model.py @@ -0,0 +1,69 @@ +""" +Test a model functionality +""" +import pytest +from domainlab.models.a_model import AModel + +class ModelTest(AModel): + """ + A test model class conforming to model naming + """ + + def __init__(self): + super().__init__() + self.test_param = 42 + + def cal_task_loss(self, tensor_x, tensor_y): + return 0 + + def _cal_reg_loss(self, tensor_x, tensor_y, tensor_d, others=None): + return 0 + + @property + def metric4msel(self): + return "" + + +class InvalidTest(AModel): + """ + A test model class that does not conform to the "Model" prefix naming convention + """ + + def cal_task_loss(self, tensor_x, tensor_y): + return 0 + + def _cal_reg_loss(self, tensor_x, tensor_y, tensor_d, others=None): + return 0 + + @property + def metric4msel(self): + return "" + + +def test_model_name_valid(): + """ + Test a valid model name + """ + model = ModelTest() + assert model.name == "test", f"Expected 'test' but got '{model.name}'" + + +def test_model_name_invalid(): + """ + Test an invalid model name + """ + model = InvalidTest() + with pytest.raises(RuntimeError, match="Model builder node class must start with"): + _ = model.name + + +def test_print_parameters(capsys): + """ + Test the printing of parameters + """ + model = ModelTest() + model.print_parameters() + captured = capsys.readouterr() + assert "Parameters of ModelTest:" in captured.out + assert "'test_param': 42" in captured.out + \ No newline at end of file diff --git a/tests/test_a_trainer.py b/tests/test_a_trainer.py new file mode 100644 index 000000000..d4e073ae3 --- /dev/null +++ b/tests/test_a_trainer.py @@ -0,0 +1,34 @@ +""" +Test a trainer functionality +""" + +from domainlab.algos.trainers.a_trainer import AbstractTrainer + +class TrainerTest(AbstractTrainer): + """ + A test trainer class conforming to model naming + """ + + def __init__(self): + super().__init__() + self.test_param = 42 + + def tr_epoch(self, epoch): + """ + :param epoch: + """ + + def before_tr(self): + """ + before training, probe model performance + """ + +def test_print_parameters(capsys): + """ + Test the printing of parameters + """ + trainer = TrainerTest() + trainer.print_parameters() + captured = capsys.readouterr() + assert "Parameters of TrainerTest:" in captured.out + assert "'test_param': 42" in captured.out diff --git a/tests/test_argparse.py b/tests/test_argparse.py index 683f66911..2eaaae10b 100644 --- a/tests/test_argparse.py +++ b/tests/test_argparse.py @@ -1,14 +1,11 @@ """ Test argparser functionality """ - import os import sys - import pytest - from domainlab.arg_parser import apply_dict_to_args, mk_parser_main, parse_cmd_args - +from domainlab.arg_parser import ParseValuesOrKeyValuePairs def test_parse_cmd_args_warning(): """Call argparser for command line""" @@ -54,3 +51,31 @@ def test_apply_dict_to_args(): apply_dict_to_args(args, data, extend=True) assert args.a == 1 assert args.model == "diva" + +def test_store_dict_key_value_valid(): + """Testing to parse valid gamma_reg value""" + parser = mk_parser_main() + parser.add_argument("--keypair", action=ParseValuesOrKeyValuePairs) + namespace = parser.parse_args(["--keypair", "1"]) + assert namespace.keypair == 1.0 + +def test_store_dict_key_value_pair_valid(): + """Testing to parse valid gamma_reg key value paris""" + parser = mk_parser_main() + parser.add_argument("--keypair", action=ParseValuesOrKeyValuePairs) + namespace = parser.parse_args(["--keypair", "value1=1,value2=2"]) + assert namespace.keypair == {"value1": 1.0, "value2": 2.0} + +def test_store_dict_key_value_invalid(): + """Testing to parse invalid gamma_reg value""" + parser = mk_parser_main() + parser.add_argument("--keypair", action=ParseValuesOrKeyValuePairs) + with pytest.raises(ValueError): + parser.parse_args(["--keypair", "invalid"]) + +def test_store_dict_key_value_pair_invalid(): + """Testing to parse invalid gamma_reg key value pairs""" + parser = mk_parser_main() + parser.add_argument("--keypair", action=ParseValuesOrKeyValuePairs) + with pytest.raises(ValueError): + parser.parse_args(["--keypair", "value1=1,value2=invalid"]) diff --git a/tests/test_hyperparameter_retrieval.py b/tests/test_hyperparameter_retrieval.py new file mode 100644 index 000000000..a9a141329 --- /dev/null +++ b/tests/test_hyperparameter_retrieval.py @@ -0,0 +1,44 @@ +""" +unit test for hyperparameter parsing +""" +import pytest +from domainlab.arg_parser import mk_parser_main +from domainlab.utils.hyperparameter_retrieval import get_gamma_reg + +def test_store_dict_key_pair_single_value(): + """Test to parse a single gamma_reg parameter""" + parser = mk_parser_main() + args = parser.parse_args(['--gamma_reg', '0.5']) + assert args.gamma_reg == 0.5 + +def test_store_dict_key_pair_dict_value(): + """Test to parse a dict for the gamma_reg""" + parser = mk_parser_main() + args = parser.parse_args(['--gamma_reg', 'dann=1.0,jigen=2.0']) + assert args.gamma_reg == {'dann': 1.0, 'jigen': 2.0} + +def test_get_gamma_reg_single_value(): + """Test to retrieve a single gamma_reg parameter which is applied to all objects""" + parser = mk_parser_main() + args = parser.parse_args(['--gamma_reg', '0.5']) + assert get_gamma_reg(args, 'dann') == 0.5 + +def test_get_gamma_reg_dict_value(): + """Test to retrieve a dict of gamma_reg parameters for different objects""" + parser = mk_parser_main() + args = parser.parse_args(['--gamma_reg', 'default=5.0,dann=1.0,jigen=2.0']) + assert get_gamma_reg(args, 'dann') == 1.0 + assert get_gamma_reg(args, 'jigen') == 2.0 + assert get_gamma_reg(args, 'nonexistent') == 5.0 # if we implement other + # model/trainers, + # since not specified in command line arguments, the new model/trainer + # called "nonexistent" should + # get the default value 5.0. + +def test_exception(): + """Test to not specify a default value""" + parser = mk_parser_main() + args = parser.parse_args(['--gamma_reg', 'dann=1.0']) + + with pytest.raises(ValueError, match="If a gamma_reg dict is specified"): + get_gamma_reg(args, 'jigen') diff --git a/tests/test_irm.py b/tests/test_irm.py new file mode 100644 index 000000000..5ed8b4ceb --- /dev/null +++ b/tests/test_irm.py @@ -0,0 +1,22 @@ +""" +end-end test +""" +from tests.utils_test import utils_test_algo + + +def test_irm(): + """ + train with Invariant Risk Minimization + """ + args = "--te_d=caltech --task=mini_vlcs --debug --bs=2 --model=erm \ + --trainer=irm --nname=alexnet" + utils_test_algo(args) + + +def test_irm_mnist(): + """ + train with Invariant Risk Minimization + """ + args = "--te_d=0 --task=mnistcolor10 --keep_model --model=erm \ + --trainer=irm --nname=conv_bn_pool_2" + utils_test_algo(args)