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Given the following text description, write Python code to implement the functionality described below step by step
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Description:
 Exploring the dataset
First, we will examine the data set we will use to train the classifier.  The training data is contained in the file facies_vectors.csv.  The dataset consists of 5 wireline log measurements, two indicator variables and a facies label at half foot intervals.  In machine learning terminology, each log measurement is a feature vector that maps a set of 'features' (the log measurements) to a class (the facies type).  We will use the pandas library to load the data into a dataframe, which provides a convenient data structure to work with well log data.
Step1:  This data is from the Council Grove gas reservoir in Southwest Kansas.  The Panoma Council Grove Field is predominantly a carbonate gas reservoir encompassing 2700 square miles in Southwestern Kansas.  This dataset is from nine wells (with 4149 examples), consisting of a set of seven predictor variables and a rock facies (class) for each example vector and validation (test) data (830 examples from two wells) having the same seven predictor variables in the feature vector.  Facies are based on examination of cores from nine wells taken vertically at half-foot intervals. Predictor variables include five from wireline log measurements and two geologic constraining variables that are derived from geologic knowledge. These are essentially continuous variables sampled at a half-foot sample rate. 
The seven predictor variables are
Step2:  This is a quick view of the statistical distribution of the input variables.  Looking at the count values, there are 3232 feature vectors in the training set.
Remove a single well to use as a blind test later.
Step3:  These are the names of the 10 training wells in the Council Grove reservoir.  Data has been recruited into pseudo-well 'Recruit F9' to better represent facies 9, the Phylloid-algal bafflestone. 
Before we plot the well data, let's define a color map so the facies are represented by consistent color in all the plots in this tutorial.  We also create the abbreviated facies labels, and add those to the facies_vectors dataframe.
Step4:  Let's take a look at the data from individual wells in a more familiar log plot form.  We will create plots for the five well log variables, as well as a log for facies labels.  The plots are based on the those described in Alessandro Amato del Monte's excellent tutorial.
Step5:  Placing the log plotting code in a function will make it easy to plot the logs from multiples wells, and can be reused later to view the results when we apply the facies classification model to other wells.  The function was written to take a list of colors and facies labels as parameters.  
We then show log plots for wells SHRIMPLIN.
Step6:  In addition to individual wells, we can look at how the various facies are represented by the entire training set.  Let's plot a histogram of the number of training examples for each facies class.
Step7:  This shows the distribution of examples by facies for the examples in the training set.  Dolomite (facies 7) has the fewest with 81 examples.  Depending on the performance of the classifier we are going to train, we may consider getting more examples of these facies.
Crossplots are a familiar tool in the geosciences to visualize how two properties vary with rock type.  This dataset contains 5 log variables, and scatter matrix can help to quickly visualize the variation between the all the variables in the dataset.  We can employ the very useful Seaborn library to quickly create a nice looking scatter matrix. Each pane in the plot shows the relationship between two of the variables on the x and y axis, with each point is colored according to its facies.  The same colormap is used to represent the 9 facies.
Step8:  Conditioning the data set
Now we extract just the feature variables we need to perform the classification.  The predictor variables are the five wireline values and two geologic constraining variables. We also get a vector of the facies labels that correspond to each feature vector.
Step9:  Scikit includes a preprocessing module that can 'standardize' the data (giving each variable zero mean and unit variance, also called whitening).  Many machine learning algorithms assume features will be standard normally distributed data (ie
Step10:  Scikit also includes a handy function to randomly split the training data into training and test sets.  The test set contains a small subset of feature vectors that are not used to train the network.  Because we know the true facies labels for these examples, we can compare the results of the classifier to the actual facies and determine the accuracy of the model.  Let's use 20% of the data for the test set.
Step11:  Training the classifier using Gradient Boosting
Now we use the cleaned and conditioned training set to create a facies classifier.  As mentioned above, we will use a type of machine learning model known as a Gradient Boosting.
Step12:  Now we can train the classifier using the training set we created above.
Step13:  Now that the model has been trained on our data, we can use it to predict the facies of the feature vectors in the test set.
Step14:  We need some metrics to evaluate how good our classifier is doing.  A confusion matrix is a table that can be used to describe the performance of a classification model.  Scikit-learn allows us to easily create a confusion matrix by supplying the actual and predicted facies labels.
The confusion matrix is simply a 2D array.  The entries of confusion matrix C[i][j] are equal to the number of observations predicted to have facies j, but are known to have facies i.  
To simplify reading the confusion matrix, a function has been written to display the matrix along with facies labels and various error metrics.  See the file classification_utilities.py in this repo for the display_cm() function.
Step15:  The rows of the confusion matrix correspond to the actual facies labels.  The columns correspond to the labels assigned by the classifier.  For example, consider the first row. For the feature vectors in the test set that actually have label SS, 18 were correctly indentified as SS, 5 were classified as CSiS and 1 was classified as FSiS.
The entries along the diagonal are the facies that have been correctly classified.  Below we define two functions that will give an overall value for how the algorithm is performing.  The accuracy is defined as the number of correct classifications divided by the total number of classifications.
Step16:  As noted above, the boundaries between the facies classes are not all sharp, and some of them blend into one another.  The error within these 'adjacent facies' can also be calculated.  We define an array to represent the facies adjacent to each other.  For facies label i, adjacent_facies[i] is an array of the adjacent facies labels.
Step17:  Applying the classification model to the blind data
We held a well back from the training, and stored it in a dataframe called blind
Step18:  The label vector is just the Facies column
Step19:  We can form the feature matrix by dropping some of the columns and making a new dataframe
Step20:  Now we can transform this with the scaler we made before
Step21:  Now it's a simple matter of making a prediction and storing it back in the dataframe
Step22:  Let's see how we did with the confusion matrix
Step23:  The results are 0.59 accuracy on facies classification of blind data and 0.92 adjacent facies classification.
Step24:  ...but does remarkably well on the adjacent facies predictions.
Step25:  Applying the classification model to new data
Now that we have a trained facies classification model we can use it to identify facies in wells that do not have core data.  In this case, we will apply the classifier to two wells, but we could use it on any number of wells for which we have the same set of well logs for input.
This dataset is similar to the training data except it does not have facies labels.  It is loaded into a dataframe called test_data.
Step26:  The data needs to be scaled using the same constants we used for the training data.
Step27:  Finally we predict facies labels for the unknown data, and store the results in a Facies column of the test_data dataframe.
Step28:  We can use the well log plot to view the classification results along with the well logs.
Step29:  Finally we can write out a csv file with the well data along with the facies classification results.
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Python Code:
%matplotlib inline
import pandas as pd
import numpy as np
import matplotlib as mpl
import matplotlib.pyplot as plt
import matplotlib.colors as colors
from mpl_toolkits.axes_grid1 import make_axes_locatable
from pandas import set_option
set_option("display.max_rows", 10)
pd.options.mode.chained_assignment = None
filename = 'training_data.csv'
training_data = pd.read_csv(filename)
training_data
Explanation: Exploring the dataset
First, we will examine the data set we will use to train the classifier.  The training data is contained in the file facies_vectors.csv.  The dataset consists of 5 wireline log measurements, two indicator variables and a facies label at half foot intervals.  In machine learning terminology, each log measurement is a feature vector that maps a set of 'features' (the log measurements) to a class (the facies type).  We will use the pandas library to load the data into a dataframe, which provides a convenient data structure to work with well log data.
End of explanation
training_data['Well Name'] = training_data['Well Name'].astype('category')
training_data['Formation'] = training_data['Formation'].astype('category')
training_data['Well Name'].unique()
training_data.describe()
Explanation: This data is from the Council Grove gas reservoir in Southwest Kansas.  The Panoma Council Grove Field is predominantly a carbonate gas reservoir encompassing 2700 square miles in Southwestern Kansas.  This dataset is from nine wells (with 4149 examples), consisting of a set of seven predictor variables and a rock facies (class) for each example vector and validation (test) data (830 examples from two wells) having the same seven predictor variables in the feature vector.  Facies are based on examination of cores from nine wells taken vertically at half-foot intervals. Predictor variables include five from wireline log measurements and two geologic constraining variables that are derived from geologic knowledge. These are essentially continuous variables sampled at a half-foot sample rate. 
The seven predictor variables are:
* Five wire line log curves include gamma ray (GR), resistivity logging (ILD_log10),
photoelectric effect (PE), neutron-density porosity difference and average neutron-density porosity (DeltaPHI and PHIND). Note, some wells do not have PE.
* Two geologic constraining variables: nonmarine-marine indicator (NM_M) and relative position (RELPOS)
The nine discrete facies (classes of rocks) are: 
1. Nonmarine sandstone
2. Nonmarine coarse siltstone 
3. Nonmarine fine siltstone 
4. Marine siltstone and shale 
5. Mudstone (limestone)
6. Wackestone (limestone)
7. Dolomite
8. Packstone-grainstone (limestone)
9. Phylloid-algal bafflestone (limestone)
These facies aren't discrete, and gradually blend into one another. Some have neighboring facies that are rather close.  Mislabeling within these neighboring facies can be expected to occur.  The following table lists the facies, their abbreviated labels and their approximate neighbors.
Facies |Label| Adjacent Facies
:---: | :---: |:--:
1 |SS| 2
2 |CSiS| 1,3
3 |FSiS| 2
4 |SiSh| 5
5 |MS| 4,6
6 |WS| 5,7
7 |D| 6,8
8 |PS| 6,7,9
9 |BS| 7,8
Let's clean up this dataset.  The 'Well Name' and 'Formation' columns can be turned into a categorical data type.
End of explanation
blind = training_data[training_data['Well Name'] == 'SHANKLE']
training_data = training_data[training_data['Well Name'] != 'SHANKLE']
Explanation: This is a quick view of the statistical distribution of the input variables.  Looking at the count values, there are 3232 feature vectors in the training set.
Remove a single well to use as a blind test later.
End of explanation
# 1=sandstone  2=c_siltstone   3=f_siltstone 
# 4=marine_silt_shale 5=mudstone 6=wackestone 7=dolomite
# 8=packstone 9=bafflestone
facies_colors = ['#F4D03F', '#F5B041','#DC7633','#6E2C00',
       '#1B4F72','#2E86C1', '#AED6F1', '#A569BD', '#196F3D']
facies_labels = ['SS', 'CSiS', 'FSiS', 'SiSh', 'MS',
                 'WS', 'D','PS', 'BS']
#facies_color_map is a dictionary that maps facies labels
#to their respective colors
facies_color_map = {}
for ind, label in enumerate(facies_labels):
    facies_color_map[label] = facies_colors[ind]
def label_facies(row, labels):
    return labels[ row['Facies'] -1]
    
training_data.loc[:,'FaciesLabels'] = training_data.apply(lambda row: label_facies(row, facies_labels), axis=1)
Explanation: These are the names of the 10 training wells in the Council Grove reservoir.  Data has been recruited into pseudo-well 'Recruit F9' to better represent facies 9, the Phylloid-algal bafflestone. 
Before we plot the well data, let's define a color map so the facies are represented by consistent color in all the plots in this tutorial.  We also create the abbreviated facies labels, and add those to the facies_vectors dataframe.
End of explanation
def make_facies_log_plot(logs, facies_colors):
    #make sure logs are sorted by depth
    logs = logs.sort_values(by='Depth')
    cmap_facies = colors.ListedColormap(
            facies_colors[0:len(facies_colors)], 'indexed')
    
    ztop=logs.Depth.min(); zbot=logs.Depth.max()
    
    cluster=np.repeat(np.expand_dims(logs['Facies'].values,1), 100, 1)
    
    f, ax = plt.subplots(nrows=1, ncols=6, figsize=(8, 12))
    ax[0].plot(logs.GR, logs.Depth, '-g')
    ax[1].plot(logs.ILD_log10, logs.Depth, '-')
    ax[2].plot(logs.DeltaPHI, logs.Depth, '-', color='0.5')
    ax[3].plot(logs.PHIND, logs.Depth, '-', color='r')
    ax[4].plot(logs.PE, logs.Depth, '-', color='black')
    im=ax[5].imshow(cluster, interpolation='none', aspect='auto',
                    cmap=cmap_facies,vmin=1,vmax=9)
    
    divider = make_axes_locatable(ax[5])
    cax = divider.append_axes("right", size="20%", pad=0.05)
    cbar=plt.colorbar(im, cax=cax)
    cbar.set_label((17*' ').join([' SS ', 'CSiS', 'FSiS', 
                                'SiSh', ' MS ', ' WS ', ' D  ', 
                                ' PS ', ' BS ']))
    cbar.set_ticks(range(0,1)); cbar.set_ticklabels('')
    
    for i in range(len(ax)-1):
        ax[i].set_ylim(ztop,zbot)
        ax[i].invert_yaxis()
        ax[i].grid()
        ax[i].locator_params(axis='x', nbins=3)
    
    ax[0].set_xlabel("GR")
    ax[0].set_xlim(logs.GR.min(),logs.GR.max())
    ax[1].set_xlabel("ILD_log10")
    ax[1].set_xlim(logs.ILD_log10.min(),logs.ILD_log10.max())
    ax[2].set_xlabel("DeltaPHI")
    ax[2].set_xlim(logs.DeltaPHI.min(),logs.DeltaPHI.max())
    ax[3].set_xlabel("PHIND")
    ax[3].set_xlim(logs.PHIND.min(),logs.PHIND.max())
    ax[4].set_xlabel("PE")
    ax[4].set_xlim(logs.PE.min(),logs.PE.max())
    ax[5].set_xlabel('Facies')
    
    ax[1].set_yticklabels([]); ax[2].set_yticklabels([]); ax[3].set_yticklabels([])
    ax[4].set_yticklabels([]); ax[5].set_yticklabels([])
    ax[5].set_xticklabels([])
    f.suptitle('Well: %s'%logs.iloc[0]['Well Name'], fontsize=14,y=0.94)
Explanation: Let's take a look at the data from individual wells in a more familiar log plot form.  We will create plots for the five well log variables, as well as a log for facies labels.  The plots are based on the those described in Alessandro Amato del Monte's excellent tutorial.
End of explanation
make_facies_log_plot(
    training_data[training_data['Well Name'] == 'SHRIMPLIN'],
    facies_colors)
Explanation: Placing the log plotting code in a function will make it easy to plot the logs from multiples wells, and can be reused later to view the results when we apply the facies classification model to other wells.  The function was written to take a list of colors and facies labels as parameters.  
We then show log plots for wells SHRIMPLIN.
End of explanation
#count the number of unique entries for each facies, sort them by
#facies number (instead of by number of entries)
facies_counts = training_data['Facies'].value_counts().sort_index()
#use facies labels to index each count
facies_counts.index = facies_labels
facies_counts.plot(kind='bar',color=facies_colors, 
                   title='Distribution of Training Data by Facies')
facies_counts
Explanation: In addition to individual wells, we can look at how the various facies are represented by the entire training set.  Let's plot a histogram of the number of training examples for each facies class.
End of explanation
#save plot display settings to change back to when done plotting with seaborn
inline_rc = dict(mpl.rcParams)
import seaborn as sns
sns.set()
sns.pairplot(training_data.drop(['Well Name','Facies','Formation','Depth','NM_M','RELPOS'],axis=1),
             hue='FaciesLabels', palette=facies_color_map,
             hue_order=list(reversed(facies_labels)))
#switch back to default matplotlib plot style
mpl.rcParams.update(inline_rc)
Explanation: This shows the distribution of examples by facies for the examples in the training set.  Dolomite (facies 7) has the fewest with 81 examples.  Depending on the performance of the classifier we are going to train, we may consider getting more examples of these facies.
Crossplots are a familiar tool in the geosciences to visualize how two properties vary with rock type.  This dataset contains 5 log variables, and scatter matrix can help to quickly visualize the variation between the all the variables in the dataset.  We can employ the very useful Seaborn library to quickly create a nice looking scatter matrix. Each pane in the plot shows the relationship between two of the variables on the x and y axis, with each point is colored according to its facies.  The same colormap is used to represent the 9 facies.
End of explanation
correct_facies_labels = training_data['Facies'].values
feature_vectors = training_data.drop(['Formation', 'Well Name', 'Depth','Facies','FaciesLabels'], axis=1)
feature_vectors.describe()
Explanation: Conditioning the data set
Now we extract just the feature variables we need to perform the classification.  The predictor variables are the five wireline values and two geologic constraining variables. We also get a vector of the facies labels that correspond to each feature vector.
End of explanation
from sklearn import preprocessing
scaler = preprocessing.StandardScaler().fit(feature_vectors)
scaled_features = scaler.transform(feature_vectors)
feature_vectors
Explanation: Scikit includes a preprocessing module that can 'standardize' the data (giving each variable zero mean and unit variance, also called whitening).  Many machine learning algorithms assume features will be standard normally distributed data (ie: Gaussian with zero mean and unit variance).  The factors used to standardize the training set must be applied to any subsequent feature set that will be input to the classifier.  The StandardScalar class can be fit to the training set, and later used to standardize any training data.
End of explanation
from sklearn.cross_validation import train_test_split
X_train, X_test, y_train, y_test = train_test_split(
        scaled_features, correct_facies_labels, test_size=0.1, random_state=42)
Explanation: Scikit also includes a handy function to randomly split the training data into training and test sets.  The test set contains a small subset of feature vectors that are not used to train the network.  Because we know the true facies labels for these examples, we can compare the results of the classifier to the actual facies and determine the accuracy of the model.  Let's use 20% of the data for the test set.
End of explanation
from sklearn.ensemble import GradientBoostingClassifier
gbModel = GradientBoostingClassifier(loss='deviance', n_estimators=100, learning_rate=0.1, max_depth=3, random_state=None, max_leaf_nodes=None, verbose=1)
Explanation: Training the classifier using Gradient Boosting
Now we use the cleaned and conditioned training set to create a facies classifier.  As mentioned above, we will use a type of machine learning model known as a Gradient Boosting.
End of explanation
gbModel.fit(X_train,y_train)
Explanation: Now we can train the classifier using the training set we created above.
End of explanation
predicted_labels = gbModel.predict(X_test)
Explanation: Now that the model has been trained on our data, we can use it to predict the facies of the feature vectors in the test set.
End of explanation
from sklearn.metrics import confusion_matrix
from classification_utilities import display_cm, display_adj_cm
conf = confusion_matrix(y_test, predicted_labels)
display_cm(conf, facies_labels, hide_zeros=True)
Explanation: We need some metrics to evaluate how good our classifier is doing.  A confusion matrix is a table that can be used to describe the performance of a classification model.  Scikit-learn allows us to easily create a confusion matrix by supplying the actual and predicted facies labels.
The confusion matrix is simply a 2D array.  The entries of confusion matrix C[i][j] are equal to the number of observations predicted to have facies j, but are known to have facies i.  
To simplify reading the confusion matrix, a function has been written to display the matrix along with facies labels and various error metrics.  See the file classification_utilities.py in this repo for the display_cm() function.
End of explanation
def accuracy(conf):
    total_correct = 0.
    nb_classes = conf.shape[0]
    for i in np.arange(0,nb_classes):
        total_correct += conf[i][i]
    acc = total_correct/sum(sum(conf))
    return acc
Explanation: The rows of the confusion matrix correspond to the actual facies labels.  The columns correspond to the labels assigned by the classifier.  For example, consider the first row. For the feature vectors in the test set that actually have label SS, 18 were correctly indentified as SS, 5 were classified as CSiS and 1 was classified as FSiS.
The entries along the diagonal are the facies that have been correctly classified.  Below we define two functions that will give an overall value for how the algorithm is performing.  The accuracy is defined as the number of correct classifications divided by the total number of classifications.
End of explanation
adjacent_facies = np.array([[1], [0,2], [1], [4], [3,5], [4,6,7], [5,7], [5,6,8], [6,7]])
def accuracy_adjacent(conf, adjacent_facies):
    nb_classes = conf.shape[0]
    total_correct = 0.
    for i in np.arange(0,nb_classes):
        total_correct += conf[i][i]
        for j in adjacent_facies[i]:
            total_correct += conf[i][j]
    return total_correct / sum(sum(conf))
print('Facies classification accuracy = %f' % accuracy(conf))
print('Adjacent facies classification accuracy = %f' % accuracy_adjacent(conf, adjacent_facies))
Explanation: As noted above, the boundaries between the facies classes are not all sharp, and some of them blend into one another.  The error within these 'adjacent facies' can also be calculated.  We define an array to represent the facies adjacent to each other.  For facies label i, adjacent_facies[i] is an array of the adjacent facies labels.
End of explanation
blind
Explanation: Applying the classification model to the blind data
We held a well back from the training, and stored it in a dataframe called blind:
End of explanation
y_blind = blind['Facies'].values
Explanation: The label vector is just the Facies column:
End of explanation
well_features = blind.drop(['Facies', 'Formation', 'Well Name', 'Depth'], axis=1)
Explanation: We can form the feature matrix by dropping some of the columns and making a new dataframe:
End of explanation
X_blind = scaler.transform(well_features)
Explanation: Now we can transform this with the scaler we made before:
End of explanation
y_pred = gbModel.predict(X_blind)
blind['Prediction'] = y_pred
Explanation: Now it's a simple matter of making a prediction and storing it back in the dataframe:
End of explanation
cv_conf = confusion_matrix(y_blind, y_pred)
print('Optimized facies classification accuracy = %.2f' % accuracy(cv_conf))
print('Optimized adjacent facies classification accuracy = %.2f' % accuracy_adjacent(cv_conf, adjacent_facies))
Explanation: Let's see how we did with the confusion matrix:
End of explanation
display_cm(cv_conf, facies_labels,
           display_metrics=True, hide_zeros=True)
Explanation: The results are 0.59 accuracy on facies classification of blind data and 0.92 adjacent facies classification.
End of explanation
display_adj_cm(cv_conf, facies_labels, adjacent_facies,
               display_metrics=True, hide_zeros=True)
def compare_facies_plot(logs, compadre, facies_colors):
    #make sure logs are sorted by depth
    logs = logs.sort_values(by='Depth')
    cmap_facies = colors.ListedColormap(
            facies_colors[0:len(facies_colors)], 'indexed')
    
    ztop=logs.Depth.min(); zbot=logs.Depth.max()
    
    cluster1 = np.repeat(np.expand_dims(logs['Facies'].values,1), 100, 1)
    cluster2 = np.repeat(np.expand_dims(logs[compadre].values,1), 100, 1)
    
    f, ax = plt.subplots(nrows=1, ncols=7, figsize=(9, 12))
    ax[0].plot(logs.GR, logs.Depth, '-g')
    ax[1].plot(logs.ILD_log10, logs.Depth, '-')
    ax[2].plot(logs.DeltaPHI, logs.Depth, '-', color='0.5')
    ax[3].plot(logs.PHIND, logs.Depth, '-', color='r')
    ax[4].plot(logs.PE, logs.Depth, '-', color='black')
    im1 = ax[5].imshow(cluster1, interpolation='none', aspect='auto',
                    cmap=cmap_facies,vmin=1,vmax=9)
    im2 = ax[6].imshow(cluster2, interpolation='none', aspect='auto',
                    cmap=cmap_facies,vmin=1,vmax=9)
    
    divider = make_axes_locatable(ax[6])
    cax = divider.append_axes("right", size="20%", pad=0.05)
    cbar=plt.colorbar(im2, cax=cax)
    cbar.set_label((17*' ').join([' SS ', 'CSiS', 'FSiS', 
                                'SiSh', ' MS ', ' WS ', ' D  ', 
                                ' PS ', ' BS ']))
    cbar.set_ticks(range(0,1)); cbar.set_ticklabels('')
    
    for i in range(len(ax)-2):
        ax[i].set_ylim(ztop,zbot)
        ax[i].invert_yaxis()
        ax[i].grid()
        ax[i].locator_params(axis='x', nbins=3)
    
    ax[0].set_xlabel("GR")
    ax[0].set_xlim(logs.GR.min(),logs.GR.max())
    ax[1].set_xlabel("ILD_log10")
    ax[1].set_xlim(logs.ILD_log10.min(),logs.ILD_log10.max())
    ax[2].set_xlabel("DeltaPHI")
    ax[2].set_xlim(logs.DeltaPHI.min(),logs.DeltaPHI.max())
    ax[3].set_xlabel("PHIND")
    ax[3].set_xlim(logs.PHIND.min(),logs.PHIND.max())
    ax[4].set_xlabel("PE")
    ax[4].set_xlim(logs.PE.min(),logs.PE.max())
    ax[5].set_xlabel('Facies')
    ax[6].set_xlabel(compadre)
    
    ax[1].set_yticklabels([]); ax[2].set_yticklabels([]); ax[3].set_yticklabels([])
    ax[4].set_yticklabels([]); ax[5].set_yticklabels([])
    ax[5].set_xticklabels([])
    ax[6].set_xticklabels([])
    f.suptitle('Well: %s'%logs.iloc[0]['Well Name'], fontsize=14,y=0.94)
compare_facies_plot(blind, 'Prediction', facies_colors)
Explanation: ...but does remarkably well on the adjacent facies predictions.
End of explanation
well_data = pd.read_csv('validation_data_nofacies.csv')
well_data['Well Name'] = well_data['Well Name'].astype('category')
well_features = well_data.drop(['Formation', 'Well Name', 'Depth'], axis=1)
Explanation: Applying the classification model to new data
Now that we have a trained facies classification model we can use it to identify facies in wells that do not have core data.  In this case, we will apply the classifier to two wells, but we could use it on any number of wells for which we have the same set of well logs for input.
This dataset is similar to the training data except it does not have facies labels.  It is loaded into a dataframe called test_data.
End of explanation
X_unknown = scaler.transform(well_features)
Explanation: The data needs to be scaled using the same constants we used for the training data.
End of explanation
#predict facies of unclassified data
y_unknown = gbModel.predict(X_unknown)
well_data['Facies'] = y_unknown
well_data
well_data['Well Name'].unique()
Explanation: Finally we predict facies labels for the unknown data, and store the results in a Facies column of the test_data dataframe.
End of explanation
make_facies_log_plot(
    well_data[well_data['Well Name'] == 'STUART'],
    facies_colors=facies_colors)
make_facies_log_plot(
    well_data[well_data['Well Name'] == 'CRAWFORD'],
    facies_colors=facies_colors)
Explanation: We can use the well log plot to view the classification results along with the well logs.
End of explanation
well_data.to_csv('well_data_with_facies.csv')
Explanation: Finally we can write out a csv file with the well data along with the facies classification results.
End of explanation
<END_TASK>