Add BOHB Advisor (#910)

add BOHB Advisor

README.md

@@ -65,6 +65,7 @@ The tool dispatches and runs trial jobs generated by tuning algorithms to search
           <li><a href="docs/en_US/Builtin_Tuner.md#NetworkMorphism">Network Morphism</a></li>
           <li><a href="examples/tuners/enas_nni/README.md">ENAS</a></li>
           <li><a href="docs/en_US/Builtin_Tuner.md#NetworkMorphism#MetisTuner">Metis Tuner</a></li>
+          <li><a href="docs/en_US/Builtin_Tuner.md#BOHB">BOHB</a></li>
         </ul>
           <a href="docs/en_US/Builtin_Assessors.md#assessor">Assessor</a> 
         <ul>

docs/en_US/Builtin_Tuner.md

@@ -18,6 +18,7 @@ Currently we support the following algorithms:
 |[__Hyperband__](#Hyperband)|Hyperband tries to use the limited resource to explore as many configurations as possible, and finds out the promising ones to get the final result. The basic idea is generating many configurations and to run them for the small number of trial budget to find out promising one, then further training those promising ones to select several more promising one.[Reference Paper](https://arxiv.org/pdf/1603.06560.pdf)|
 |[__Network Morphism__](#NetworkMorphism)|Network Morphism provides functions to automatically search for architecture of deep learning models. Every child network inherits the knowledge from its parent network and morphs into diverse types of networks, including changes of depth, width, and skip-connection. Next, it estimates the value of a child network using the historic architecture and metric pairs. Then it selects the most promising one to train. [Reference Paper](https://arxiv.org/abs/1806.10282)|
 |[__Metis Tuner__](#MetisTuner)|Metis offers the following benefits when it comes to tuning parameters: While most tools only predict the optimal configuration, Metis gives you two outputs: (a) current prediction of optimal configuration, and (b) suggestion for the next trial. No more guesswork. While most tools assume training datasets do not have noisy data, Metis actually tells you if you need to re-sample a particular hyper-parameter. [Reference Paper](https://www.microsoft.com/en-us/research/publication/metis-robustly-tuning-tail-latencies-cloud-systems/)|
+|[__BOHB__](#BOHB)|BOHB is a follow-up work of Hyperband. It targets the weakness of Hyperband that new configurations are generated randomly without leveraging finished trials. For the name BOHB, HB means Hyperband, BO means Byesian Optimization. BOHB leverages finished trials by building multiple TPE models, a proportion of new configurations are generated through these models. [Reference Paper](https://arxiv.org/abs/1807.01774)|
 
 <br>
 
@@ -317,3 +318,50 @@ tuner:
   classArgs:
     optimize_mode: maximize
 ```
+
+<br>
+
+<a name="BOHB"></a>
+
+![](https://placehold.it/15/1589F0/000000?text=+) `BOHB Advisor`
+
+> Builtin Tuner Name: **BOHB**
+
+**Installation**
+
+BOHB advisor requires [ConfigSpace](https://github.com/automl/ConfigSpace) package, ConfigSpace need to be installed by following command before first use.
+
+```bash
+nnictl package install --name=BOHB
+```
+
+**Suggested scenario**
+
+Similar to Hyperband, it is suggested when you have limited computation resource but have relatively large search space. It performs well in the scenario that intermediate result (e.g., accuracy) can reflect good or bad of final result (e.g., accuracy) to some extent. In this case, it may converges to a better configuration due to bayesian optimization usage.
+
+**Requirement of classArg**
+
+* **optimize_mode** (*maximize or minimize, optional, default = maximize*) - If 'maximize', tuners will target to maximize metrics. If 'minimize', tuner will target to minimize metrics.
+* **min_budget** (*int, optional, default = 1*) - The smallest budget assign to a trial job, (budget could be the number of mini-batches or epochs). Needs to be positive.
+* **max_budget** (*int, optional, default = 3*) - The largest budget assign to a trial job, (budget could be the number of mini-batches or epochs). Needs to be larger than min_budget.
+* **eta** (*int, optional, default = 3*) - In each iteration, a complete run of sequential halving is executed. In it, after evaluating each configuration on the same subset size, only a fraction of 1/eta of them 'advances' to the next round. Must be greater or equal to 2.
+* **min_points_in_model**(*int, optional, default = None*): number of observations to start building a KDE. Default 'None' means dim+1, when the number of completed trial in this budget is equal or larger than `max{dim+1, min_points_in_model}`, BOHB will start to build a KDE model of this budget, then use KDE model to guide the configuration selection. Need to be positive.(dim means the number of hyperparameters in search space)
+* **top_n_percent**(*int, optional, default = 15*): percentage (between 1 and 99, default 15) of the observations that are considered good. Good points and bad points are used for building KDE models. For example, if you have 100 observed trials and top_n_percent is 15, then top 15 point will used for building good point models "l(x)", the remaining 85 point will used for building bad point models "g(x)".
+* **num_samples**(*int, optional, default = 64*): number of samples to optimize EI (default 64). In this case, we will sample "num_samples"(default = 64) points, and compare the result of l(x)/g(x), then return one with the maximum l(x)/g(x) value as the next configuration if the optimize_mode is maximize. Otherwise, we return the smallest one.
+* **random_fraction**(*float, optional, default = 0.33*): fraction of purely random configurations that are sampled from the prior without the model.
+* **bandwidth_factor**(*float, optional, default = 3.0*): to encourage diversity, the points proposed to optimize EI, are sampled from a 'widened' KDE where the bandwidth is multiplied by this factor. Suggest to use default value if you are not familiar with KDE.
+* **min_bandwidth**(*float, optional, default = 0.001*): to keep diversity, even when all (good) samples have the same value for one of the parameters, a minimum bandwidth (default: 1e-3) is used instead of zero. Suggest to use default value if you are not familiar with KDE.
+
+*Please note that currently float type only support decimal representation, you have to use 0.333 instead of 1/3 and 0.001 instead of 1e-3.*
+
+**Usage example**
+
+```yml
+advisor:
+  builtinAdvisorName: BOHB
+  classArgs:
+    optimize_mode: maximize
+    min_budget: 1
+    max_budget: 27
+    eta: 3
+```
\ No newline at end of file

docs/en_US/bohbAdvisor.md

+BOHB Advisor on NNI
+===
+
+## 1. Introduction
+BOHB is a robust and efficient hyperparameter tuning algorithm mentioned in [reference paper](https://arxiv.org/abs/1807.01774). BO is the abbreviation of Bayesian optimization and HB is the abbreviation of Hyperband.
+
+BOHB relies on HB(Hyperband) to determine how many configurations to evaluate with which budget, but it **replaces the random selection of configurations at the beginning of each HB iteration by a model-based search(Byesian Optimization)**. Once the desired number of configurations for the iteration is reached, the standard successive halving procedure is carried out using these configurations. We keep track of the performance of all function evaluations g(x, b) of configurations x on all budgets b to use as a basis for our models in later iterations.
+
+Below we divide introduction of the BOHB process into two parts:
+
+### HB (Hyperband)
+
+We follow Hyperband’s way of choosing the budgets and continue to use SuccessiveHalving, for more details, you can refer to the [Hyperband in NNI](hyperbandAdvisor.md) and [reference paper of Hyperband](https://arxiv.org/abs/1603.06560). This procedure is summarized by the pseudocode below.
+
+![](../img/bohb_1.png)
+
+### BO (Bayesian Optimization)
+
+The BO part of BOHB closely resembles TPE, with one major difference: we opted for a single multidimensional KDE compared to the hierarchy of one-dimensional KDEs used in TPE in order to better handle interaction effects in the input space.
+
+Tree Parzen Estimator(TPE): uses a KDE(kernel density estimator) to model the densities.
+
+![](../img/bohb_2.png)
+
+To fit useful KDEs, we require a minimum number of data points Nmin; this is set to d + 1 for our experiments, where d is the number of hyperparameters. To build a model as early as possible, we do not wait until Nb = |Db|, the number of observations for budget b, is large enough to satisfy q · Nb ≥ Nmin. Instead, after initializing with Nmin + 2 random configurations, we choose the
+
+![](../img/bohb_3.png)
+
+best and worst configurations, respectively, to model the two densities.
+
+Note that we alse sample a constant fraction named **random fraction** of the configurations uniformly at random.
+
+## 2. Workflow
+
+![](../img/bohb_6.jpg)
+
+This image shows the workflow of BOHB. Here we set max_budget = 9, min_budget = 1, eta = 3, others as default. In this case, s_max = 2, so we will continuesly run the {s=2, s=1, s=0, s=2, s=1, s=0, ...} cycle. In each stage of SuccessiveHalving (the orange box), we will pick the top 1/eta configurations and run them again with more budget, repeated SuccessiveHalving stage until the end of this iteration. At the same time, we collect the configurations, budgets and final metrics of each trial, and use this to build a multidimensional KDEmodel with the key "budget".
+ Multidimensional KDE is used to guide the selection of configurations for the next iteration.
+
+The way of sampling procedure(use Multidimensional KDE to guide the selection) is summarized by the pseudocode below.
+
+![](../img/bohb_4.png)
+
+## 3. Usage
+
+BOHB advisor requires [ConfigSpace](https://github.com/automl/ConfigSpace) package, ConfigSpace need to be installed by following command before first use.
+
+```bash
+nnictl package install --name=BOHB
+```
+
+To use BOHB, you should add the following spec in your experiment's YAML config file:
+
+```yml
+advisor:
+  builtinAdvisorName: BOHB
+  classArgs:
+    optimize_mode: maximize
+    min_budget: 1
+    max_budget: 27
+    eta: 3
+    min_points_in_model: 7
+    top_n_percent: 15
+    num_samples: 64
+    random_fraction: 0.33
+    bandwidth_factor: 3.0
+    min_bandwidth: 0.001
+```
+
+**Requirement of classArg**
+
+* **optimize_mode** (*maximize or minimize, optional, default = maximize*) - If 'maximize', tuners will target to maximize metrics. If 'minimize', tuner will target to minimize metrics.
+* **min_budget** (*int, optional, default = 1*) - The smallest budget assign to a trial job, (budget could be the number of mini-batches or epochs). Needs to be positive.
+* **max_budget** (*int, optional, default = 3*) - The largest budget assign to a trial job, (budget could be the number of mini-batches or epochs). Needs to be larger than min_budget.
+* **eta** (*int, optional, default = 3*) - In each iteration, a complete run of sequential halving is executed. In it, after evaluating each configuration on the same subset size, only a fraction of 1/eta of them 'advances' to the next round. Must be greater or equal to 2.
+* **min_points_in_model**(*int, optional, default = None*): number of observations to start building a KDE. Default 'None' means dim+1, when the number of completed trial in this budget is equal or larger than `max{dim+1, min_points_in_model}`, BOHB will start to build a KDE model of this budget, then use KDE model to guide the configuration selection. Need to be positive.(dim means the number of hyperparameters in search space)
+* **top_n_percent**(*int, optional, default = 15*): percentage (between 1 and 99, default 15) of the observations that are considered good. Good points and bad points are used for building KDE models. For example, if you have 100 observed trials and top_n_percent is 15, then top 15 point will used for building good point models "l(x)", the remaining 85 point will used for building bad point models "g(x)".
+* **num_samples**(*int, optional, default = 64*): number of samples to optimize EI (default 64). In this case, we will sample "num_samples"(default = 64) points, and compare the result of l(x)/g(x), then return one with the maximum l(x)/g(x) value as the next configuration if the optimize_mode is maximize. Otherwise, we return the smallest one.
+* **random_fraction**(*float, optional, default = 0.33*): fraction of purely random configurations that are sampled from the prior without the model.
+* **bandwidth_factor**(*float, optional, default = 3.0*): to encourage diversity, the points proposed to optimize EI, are sampled from a 'widened' KDE where the bandwidth is multiplied by this factor. Suggest to use default value if you are not familiar with KDE.
+* **min_bandwidth**(*float, optional, default = 0.001*): to keep diversity, even when all (good) samples have the same value for one of the parameters, a minimum bandwidth (default: 1e-3) is used instead of zero. Suggest to use default value if you are not familiar with KDE.
+
+*Please note that currently float type only support decimal representation, you have to use 0.333 instead of 1/3 and 0.001 instead of 1e-3.*
+
+## 4. File Structure
+The advisor has a lot of different files, functions and classes. Here we will only give most of those files a brief introduction:
+
+* `bohb_advisor.py` Defination of BOHB, handle the interaction with the dispatcher, including generating new trial and processing results. Also includes the implementation of HB(Hyperband) part.
+* `config_generator.py` includes the implementation of BO(Bayesian Optimization) part. The function *get_config* can generate new configuration base on BO, the function *new_result* will update model with the new result.
+
+## 5. Experiment
+
+### MNIST with BOHB
+
+code implementation: [examples/trials/mnist-advisor](https://github.com/Microsoft/nni/tree/master/examples/trials/)
+
+We chose BOHB to build CNN on the MNIST dataset. The following is our experimental final results:
+
+![](../img/bohb_5.png)
+
+More experimental result can be found in the [reference paper](https://arxiv.org/abs/1807.01774), we can see that BOHB makes good use of previous results, and has a balance trade-off in exploration and exploitation.
\ No newline at end of file

docs/en_US/builtinTuner.rst

@@ -15,3 +15,4 @@ Builtin-Tuners
     Hyperband<hyperbandAdvisor>
     Network Morphism<networkmorphismTuner>
     Metis Tuner<metisTuner>
+    BOHB<bohbAdvisor>
\ No newline at end of file

docs/en_US/sdk_reference.rst

@@ -50,3 +50,6 @@ Advisor
 ------------------------
 ..  autoclass:: nni.hyperband_advisor.hyperband_advisor.Hyperband
     :members:
+
+..  autoclass:: nni.bohb_advisor.bohb_advisor.BOHB
+    :members:
\ No newline at end of file

examples/trials/mnist-advisor/config_bohb.yml

+authorName: default
+experimentName: example_mnist_bohb
+trialConcurrency: 1
+maxExecDuration: 10h
+maxTrialNum: 1000
+#choice: local, remote, pai
+trainingServicePlatform: local
+searchSpacePath: search_space.json
+#choice: true, false
+useAnnotation: false
+advisor:
+  #choice: Hyperband, BOHB
+  #(BOHB should be installed through nnictl)
+  builtinAdvisorName: BOHB
+  classArgs:
+    max_budget: 27
+    min_budget: 1
+    eta: 3
+    optimize_mode: maximize
+trial:
+  command: python3 mnist.py
+  codeDir: .
+  gpuNum: 0

examples/trials/mnist-advisor/config_hyperband.yml

 authorName: default
-experimentName: example_mnist
+experimentName: example_mnist_hyperband
 trialConcurrency: 2
 maxExecDuration: 100h
 maxTrialNum: 10000

examples/trials/mnist-advisor/config_pai.yml

@@ -10,6 +10,7 @@ searchSpacePath: search_space.json
 useAnnotation: false
 advisor:
   #choice: Hyperband, BOHB
+  #(BOHB should be installed through nnictl)
   builtinAdvisorName: Hyperband
   classArgs:
     #R: the maximum trial budget

src/nni_manager/rest_server/restValidationSchemas.ts

@@ -144,7 +144,7 @@ export namespace ValidationSchemas {
             versionCheck: joi.boolean(),
             logCollection: joi.string(),
             advisor: joi.object({
-                builtinAdvisorName: joi.string().valid('Hyperband'),
+                builtinAdvisorName: joi.string().valid('Hyperband', 'BOHB'),
                 codeDir: joi.string(),
                 classFileName: joi.string(),
                 className: joi.string(),

src/sdk/pynni/nni/bohb_advisor/config_generator.py

+# BSD 3-Clause License
+# Copyright (c) 2017-2018, ML4AAD
+# All rights reserved.
+
+# Redistribution and use in source and binary forms, with or without
+# modification, are permitted provided that the following conditions are met:
+
+# * Redistributions of source code must retain the above copyright notice, this
+#   list of conditions and the following disclaimer.
+
+# * Redistributions in binary form must reproduce the above copyright notice,
+#   this list of conditions and the following disclaimer in the documentation
+#   and/or other materials provided with the distribution.
+
+# * Neither the name of the copyright holder nor the names of its
+#   contributors may be used to endorse or promote products derived from
+#   this software without specific prior written permission.
+
+# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+# DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+# FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+# SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+# CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+# OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+# OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+
+import logging
+import traceback
+
+import ConfigSpace
+import ConfigSpace.hyperparameters
+import ConfigSpace.util
+import numpy as np
+import scipy.stats as sps
+import statsmodels.api as sm
+
+logger = logging.getLogger('BOHB_Advisor')
+
+class CG_BOHB(object):
+    def __init__(self, configspace, min_points_in_model=None,
+                 top_n_percent=15, num_samples=64, random_fraction=1/3,
+                 bandwidth_factor=3, min_bandwidth=1e-3):
+        """Fits for each given budget a kernel density estimator on the best N percent of the
+        evaluated configurations on this budget.
+
+
+        Parameters:
+        -----------
+        configspace: ConfigSpace
+            Configuration space object
+        top_n_percent: int
+            Determines the percentile of configurations that will be used as training data
+            for the kernel density estimator, e.g if set to 10 the 10% best configurations will be considered
+            for training.
+        min_points_in_model: int
+            minimum number of datapoints needed to fit a model
+        num_samples: int
+            number of samples drawn to optimize EI via sampling
+        random_fraction: float
+            fraction of random configurations returned
+        bandwidth_factor: float
+            widens the bandwidth for contiuous parameters for proposed points to optimize EI
+        min_bandwidth: float
+            to keep diversity, even when all (good) samples have the same value for one of the parameters,
+            a minimum bandwidth (Default: 1e-3) is used instead of zero.
+        """
+        self.top_n_percent = top_n_percent
+        self.configspace = configspace
+        self.bw_factor = bandwidth_factor
+        self.min_bandwidth = min_bandwidth
+
+        self.min_points_in_model = min_points_in_model
+        if min_points_in_model is None:
+            self.min_points_in_model = len(self.configspace.get_hyperparameters())+1
+
+        if self.min_points_in_model < len(self.configspace.get_hyperparameters())+1:
+            logger.warning('Invalid min_points_in_model value. Setting it to %i'%(len(self.configspace.get_hyperparameters())+1))
+            self.min_points_in_model =len(self.configspace.get_hyperparameters())+1
+
+        self.num_samples = num_samples
+        self.random_fraction = random_fraction
+
+        hps = self.configspace.get_hyperparameters()
+
+        self.kde_vartypes = ""
+        self.vartypes = []
+
+        for h in hps:
+            if hasattr(h, 'choices'):
+                self.kde_vartypes += 'u'
+                self.vartypes += [len(h.choices)]
+            else:
+                self.kde_vartypes += 'c'
+                self.vartypes += [0]
+
+        self.vartypes = np.array(self.vartypes, dtype=int)
+
+        # store precomputed probs for the categorical parameters
+        self.cat_probs = []
+
+        self.configs = dict()
+        self.losses = dict()
+        self.good_config_rankings = dict()
+        self.kde_models = dict()
+
+    def largest_budget_with_model(self):
+        if len(self.kde_models) == 0:
+            return(-float('inf'))
+        return(max(self.kde_models.keys()))
+
+    def sample_from_largest_budget(self, info_dict):
+        """We opted for a single multidimensional KDE compared to the
+        hierarchy of one-dimensional KDEs used in TPE. The dimensional is
+        seperated by budget. This function sample a configuration from
+        largest budget. Firstly we sample "num_samples" configurations,
+        then prefer one with the largest l(x)/g(x).
+        
+        Parameters:
+        -----------
+        info_dict: dict
+            record the information of this configuration
+
+        Returns
+        -------
+        dict:
+            new configuration named sample
+        dict:
+            info_dict, record the information of this configuration
+        """
+        best = np.inf
+        best_vector = None
+
+        budget = max(self.kde_models.keys())
+
+        l = self.kde_models[budget]['good'].pdf
+        g = self.kde_models[budget]['bad'].pdf
+
+        minimize_me = lambda x: max(1e-32, g(x))/max(l(x), 1e-32)
+
+        kde_good = self.kde_models[budget]['good']
+        kde_bad = self.kde_models[budget]['bad']
+
+        for i in range(self.num_samples):
+            idx = np.random.randint(0, len(kde_good.data))
+            datum = kde_good.data[idx]
+            vector = []
+
+            for m, bw, t in zip(datum, kde_good.bw, self.vartypes):
+
+                bw = max(bw, self.min_bandwidth)
+                if t == 0:
+                    bw = self.bw_factor*bw
+                    vector.append(sps.truncnorm.rvs(-m/bw, (1-m)/bw, loc=m, scale=bw))
+                else:
+                    if np.random.rand() < (1-bw):
+                        vector.append(int(m))
+                    else:
+                        vector.append(np.random.randint(t))
+            val = minimize_me(vector)
+
+            if not np.isfinite(val):
+                logger.warning('sampled vector: %s has EI value %s'%(vector, val))
+                logger.warning("data in the KDEs:\n%s\n%s"%(kde_good.data, kde_bad.data))
+                logger.warning("bandwidth of the KDEs:\n%s\n%s"%(kde_good.bw, kde_bad.bw))
+                logger.warning("l(x) = %s"%(l(vector)))
+                logger.warning("g(x) = %s"%(g(vector)))
+
+                # right now, this happens because a KDE does not contain all values for a categorical parameter
+                # this cannot be fixed with the statsmodels KDE, so for now, we are just going to evaluate this one
+                # if the good_kde has a finite value, i.e. there is no config with that value in the bad kde,
+                # so it shouldn't be terrible.
+                if np.isfinite(l(vector)):
+                    best_vector = vector
+                    break
+
+            if val < best:
+                best = val
+                best_vector = vector
+
+        if best_vector is None:
+            logger.debug("Sampling based optimization with %i samples failed -> using random configuration"%self.num_samples)
+            sample = self.configspace.sample_configuration().get_dictionary()
+            info_dict['model_based_pick'] = False
+
+        else:
+            logger.debug('best_vector: {}, {}, {}, {}'.format(best_vector, best, l(best_vector), g(best_vector)))
+            for i, hp_value in enumerate(best_vector):
+                if isinstance(
+                    self.configspace.get_hyperparameter(
+                        self.configspace.get_hyperparameter_by_idx(i)
+                    ),
+                    ConfigSpace.hyperparameters.CategoricalHyperparameter
+                ):
+                    best_vector[i] = int(np.rint(best_vector[i]))
+            sample = ConfigSpace.Configuration(self.configspace, vector=best_vector).get_dictionary()
+
+            sample = ConfigSpace.util.deactivate_inactive_hyperparameters(
+                configuration_space=self.configspace,
+                configuration=sample)
+            info_dict['model_based_pick'] = True
+
+        return sample, info_dict
+
+    def get_config(self, budget):
+        """Function to sample a new configuration
+        This function is called inside BOHB to query a new configuration
+
+        Parameters:
+        -----------
+        budget: float
+            the budget for which this configuration is scheduled
+
+        Returns
+        -------
+        config
+            return a valid configuration with parameters and budget
+        """
+        logger.debug('start sampling a new configuration.')
+        sample = None
+        info_dict = {}
+
+        # If no model is available, sample from prior
+        # also mix in a fraction of random configs
+        if len(self.kde_models.keys()) == 0 or np.random.rand() < self.random_fraction:
+            sample = self.configspace.sample_configuration()
+            info_dict['model_based_pick'] = False
+
+        if sample is None:
+            sample, info_dict= self.sample_from_largest_budget(info_dict)
+
+        sample = ConfigSpace.util.deactivate_inactive_hyperparameters(
+            configuration_space=self.configspace,
+            configuration=sample.get_dictionary()
+        ).get_dictionary()
+
+        logger.debug('done sampling a new configuration.')
+        sample['TRIAL_BUDGET'] = budget
+        return sample
+
+    def impute_conditional_data(self, array):
+        return_array = np.empty_like(array)
+        for i in range(array.shape[0]):
+            datum = np.copy(array[i])
+            nan_indices = np.argwhere(np.isnan(datum)).flatten()
+            while(np.any(nan_indices)):
+                nan_idx = nan_indices[0]
+                valid_indices = np.argwhere(np.isfinite(array[:,nan_idx])).flatten()
+                if len(valid_indices) > 0:
+                    # pick one of them at random and overwrite all NaN values
+                    row_idx = np.random.choice(valid_indices)
+                    datum[nan_indices] = array[row_idx, nan_indices]
+                else:
+                    # no good point in the data has this value activated, so fill it with a valid but random value
+                    t = self.vartypes[nan_idx]
+                    if t == 0:
+                        datum[nan_idx] = np.random.rand()
+                    else:
+                        datum[nan_idx] = np.random.randint(t)
+                nan_indices = np.argwhere(np.isnan(datum)).flatten()
+            return_array[i,:] = datum
+        return(return_array)
+
+    def new_result(self, loss, budget, parameters, update_model=True):
+        """
+        Function to register finished runs. Every time a run has finished, this function should be called
+        to register it with the loss.
+
+        Parameters:
+        -----------
+        loss: float
+            the loss of the parameters
+        budget: float
+            the budget of the parameters
+        parameters: dict
+            the parameters of this trial
+        update_model: bool
+            whether use this parameter to update BP model
+
+        Returns
+        -------
+        None
+        """
+        if loss is None:
+            # One could skip crashed results, but we decided
+            # assign a +inf loss and count them as bad configurations
+            loss = np.inf
+
+        if budget not in self.configs.keys():
+            self.configs[budget] = []
+            self.losses[budget] = []
+
+        # skip model building if we already have a bigger model
+        if max(list(self.kde_models.keys()) + [-np.inf]) > budget:
+            return
+
+        # We want to get a numerical representation of the configuration in the original space
+        conf = ConfigSpace.Configuration(self.configspace, parameters)
+        self.configs[budget].append(conf.get_array())
+        self.losses[budget].append(loss)
+
+        # skip model building:
+        # a) if not enough points are available
+        if len(self.configs[budget]) <= self.min_points_in_model - 1:
+            logger.debug("Only %i run(s) for budget %f available, need more than %s \
+            -> can't build model!"%(len(self.configs[budget]), budget, self.min_points_in_model+1))
+            return
+        # b) during warnm starting when we feed previous results in and only update once
+        if not update_model:
+            return
+
+        train_configs = np.array(self.configs[budget])
+        train_losses = np.array(self.losses[budget])
+
+        n_good = max(self.min_points_in_model, (self.top_n_percent * train_configs.shape[0])//100)
+        n_bad = max(self.min_points_in_model, ((100-self.top_n_percent)*train_configs.shape[0])//100)
+
+        # Refit KDE for the current budget
+        idx = np.argsort(train_losses)
+
+        train_data_good = self.impute_conditional_data(train_configs[idx[:n_good]])
+        train_data_bad = self.impute_conditional_data(train_configs[idx[n_good:n_good+n_bad]])
+
+        if train_data_good.shape[0] <= train_data_good.shape[1]:
+            return
+        if train_data_bad.shape[0] <= train_data_bad.shape[1]:
+            return
+
+        #more expensive crossvalidation method
+        #bw_estimation = 'cv_ls'
+        # quick rule of thumb
+        bw_estimation = 'normal_reference'
+
+        bad_kde = sm.nonparametric.KDEMultivariate(data=train_data_bad, var_type=self.kde_vartypes, bw=bw_estimation)
+        good_kde = sm.nonparametric.KDEMultivariate(data=train_data_good, var_type=self.kde_vartypes, bw=bw_estimation)
+
+        bad_kde.bw = np.clip(bad_kde.bw, self.min_bandwidth, None)
+        good_kde.bw = np.clip(good_kde.bw, self.min_bandwidth, None)
+
+        self.kde_models[budget] = {
+            'good': good_kde,
+            'bad' : bad_kde
+        }
+
+        # update probs for the categorical parameters for later sampling
+        logger.debug('done building a new model for budget %f based on %i/%i split\nBest loss for this budget:%f\n'
+                     %(budget, n_good, n_bad, np.min(train_losses)))

src/sdk/pynni/nni/bohb_advisor/requirements.txt

+ConfigSpace==0.4.7
+statsmodels==0.9.0
\ No newline at end of file

src/sdk/pynni/nni/constants.py

@@ -60,9 +60,11 @@ ClassArgs = {
 }
 
 AdvisorModuleName = {
-    'Hyperband': 'nni.hyperband_advisor.hyperband_advisor'
+    'Hyperband': 'nni.hyperband_advisor.hyperband_advisor',
+    'BOHB': 'nni.bohb_advisor.bohb_advisor'
 }
 
 AdvisorClassName = {
-    'Hyperband': 'Hyperband'
+    'Hyperband': 'Hyperband',
+    'BOHB': 'BOHB'
 }
\ No newline at end of file