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Data Ingestion with Python Cookbook
Data Ingestion with Python Cookbook

Data Ingestion with Python Cookbook: A practical guide to ingesting, monitoring, and identifying errors in the data ingestion process

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Data Ingestion with Python Cookbook

Introduction to Data Ingestion

Welcome to the fantastic world of data! Are you ready to embark on a thrilling journey into data ingestion? If so, this is the perfect book to start! Ingesting data is the first step into the big data world.

Data ingestion is a process that involves gathering and importing data and also storing it properly so that the subsequent extract, transform, and load (ETL) pipeline can utilize the data. To make it happen, we must be cautious about the tools we will use and how to configure them properly.

In our book journey, we will use Python and PySpark to retrieve data from different data sources and learn how to store them properly. To orchestrate all this, the basic concepts of Airflow will be implemented, along with efficient monitoring to guarantee that our pipelines are covered.

This chapter will introduce some basic concepts about data ingestion and how to set up your environment to start the tasks.

In this chapter, you will build and learn the following recipes:

  • Setting up Python and the environment
  • Installing PySpark
  • Configuring Docker for MongoDB
  • Configuring Docker for Airflow
  • Logging libraries
  • Creating schemas
  • Applying data governance in ingestion
  • Implementing data replication

Technical requirements

The commands inside the recipes of this chapter use Linux syntax. If you don’t use a Linux-based system, you may need to adapt the commands:

  • Docker or Docker Desktop
  • The SQL client of your choice (recommended); we recommend DBeaver, since it has a community-free version

You can find the code from this chapter in this GitHub repository: https://github.com/PacktPublishing/Data-Ingestion-with-Python-Cookbook.

Note

Windows users might get an error message such as Docker Desktop requires a newer WSL kernel version. This can be fixed by following the steps here: https://docs.docker.com/desktop/windows/wsl/.

Setting up Python and its environment

In the data world, languages such as Java, Scala, or Python are commonly used. The first two languages are used due to their compatibility with the big data tools environment, such as Hadoop and Spark, the central core of which runs on a Java Virtual Machine (JVM). However, in the past few years, the use of Python for data engineering and data science has increased significantly due to the language’s versatility, ease of understanding, and many open source libraries built by the community.

Getting ready

Let’s create a folder for our project:

  1. First, open your system command line. Since I use the Windows Subsystem for Linux (WSL), I will open the WSL application.
  2. Go to your home directory and create a folder as follows:
    $ mkdir my-project
  3. Go inside this folder:
    $ cd my-project
  4. Check your Python version on your operating system as follows:
    $ python -–version

Depending on your operational system, you might or might not have output here – for example, WSL 20.04 users might have the following output:

Command 'python' not found, did you mean:
 command 'python3' from deb python3
 command 'python' from deb python-is-python3

If your Python path is configured to use the python command, you will see output similar to this:

Python 3.9.0

Sometimes, your Python path might be configured to be invoked using python3. You can try it using the following command:

$ python3 --version

The output will be similar to the python command, as follows:

Python 3.9.0
  1. Now, let’s check our pip version. This check is essential, since some operating systems have more than one Python version installed:
    $ pip --version

You should see similar output:

pip 20.0.2 from /usr/lib/python3/dist-packages/pip (python 3.9)

If your operating system (OS) uses a Python version below 3.8x or doesn’t have the language installed, proceed to the How to do it steps; otherwise, you are ready to start the following Installing PySpark recipe.

How to do it…

We are going to use the official installer from Python.org. You can find the link for it here: https://www.python.org/downloads/:

Note

For Windows users, it is important to check your OS version, since Python 3.10 may not be yet compatible with Windows 7, or your processor type (32-bits or 64-bits).

  1. Download one of the stable versions.

At the time of writing, the stable recommended versions compatible with the tools and resources presented here are 3.8, 3.9, and 3.10. I will use the 3.9 version and download it using the following link: https://www.python.org/downloads/release/python-390/. Scrolling down the page, you will find a list of links to Python installers according to OS, as shown in the following screenshot.

Figure 1.1 – Python.org download files for version 3.9

Figure 1.1 – Python.org download files for version 3.9

  1. After downloading the installation file, double-click it and follow the instructions in the wizard window. To avoid complexity, choose the recommended settings displayed.

The following screenshot shows how it looks on Windows:

Figure 1.2 – The Python Installer for Windows

Figure 1.2 – The Python Installer for Windows

  1. If you are a Linux user, you can install it from the source using the following commands:
    $ wget https://www.python.org/ftp/python/3.9.1/Python-3.9.1.tgz
    $ tar -xf Python-3.9.1.tgz
    $ ./configure –enable-optimizations
    $ make -j 9

After installing Python, you should be able to execute the pip command. If not, refer to the pip official documentation page here: https://pip.pypa.io/en/stable/installation/.

How it works…

Python is an interpreted language, and its interpreter extends several functions made with C or C++. The language package also comes with several built-in libraries and, of course, the interpreter.

The interpreter works like a Unix shell and can be found in the usr/local/bin directory: https://docs.python.org/3/tutorial/interpreter.html.

Lastly, note that many Python third-party packages in this book require the pip command to be installed. This is because pip (an acronym for Pip Installs Packages) is the default package manager for Python; therefore, it is used to install, upgrade, and manage the Python packages and dependencies from the Python Package Index (PyPI).

There’s more…

Even if you don’t have any Python versions on your machine, you can still install them using the command line or HomeBrew (for macOS users). Windows users can also download them from the MS Windows Store.

Note

If you choose to download Python from the Windows Store, ensure you use an application made by the Python Software Foundation.

See also

You can use pip to install convenient third-party applications, such as Jupyter. This is an open source, web-based, interactive (and user-friendly) computing platform, often used by data scientists and data engineers. You can install it from the official website here: https://jupyter.org/install.

Installing PySpark

To process, clean, and transform vast amounts of data, we need a tool that provides resilience and distributed processing, and that’s why PySpark is a good fit. It gets an API over the Spark library that lets you use its applications.

Getting ready

Before starting the PySpark installation, we need to check our Java version in our operational system:

  1. Here, we check the Java version:
    $ java -version

You should see output similar to this:

openjdk version "1.8.0_292"
OpenJDK Runtime Environment (build 1.8.0_292-8u292-b10-0ubuntu1~20.04-b10)
OpenJDK 64-Bit Server VM (build 25.292-b10, mixed mode)

If everything is correct, you should see the preceding message as the output of the command and the OpenJDK 18 version or higher. However, some systems don’t have any Java version installed by default, and to cover this, we need to proceed to step 2.

  1. Now, we download the Java Development Kit (JDK).

Go to https://www.oracle.com/java/technologies/downloads/, select your OS, and download the most recent version of JDK. At the time of writing, it is JDK 19.

The download page of the JDK will look as follows:

Figure 1.3 – The JDK 19 downloads official web page

Figure 1.3 – The JDK 19 downloads official web page

Execute the downloaded application. Click on the application to start the installation process. The following window will appear:

Note

Depending on your OS, the installation window may appear slightly different.

Figure 1.4 – The Java installation wizard window

Figure 1.4 – The Java installation wizard window

Click Next for the following two questions, and the application will start the installation. You don’t need to worry about where the JDK will be installed. By default, the application is configured, as standard, to be compatible with other tools’ installations.

  1. Next, we again check our Java version. When executing the command again, you should see the following version:
    $ java -version
    openjdk version "1.8.0_292"
    OpenJDK Runtime Environment (build 1.8.0_292-8u292-b10-0ubuntu1~20.04-b10)
    OpenJDK 64-Bit Server VM (build 25.292-b10, mixed mode)

How to do it…

Here are the steps to perform this recipe:

  1. Install PySpark from PyPi:
    $ pip install pyspark

If the command runs successfully, the installation output’s last line will look like this:

Successfully built pyspark
Installing collected packages: py4j, pyspark
Successfully installed py4j-0.10.9.5 pyspark-3.3.2
  1. Execute the pyspark command to open the interactive shell. When executing the pyspark command in your command line, you should see this message:
    $ pyspark
    Python 3.8.10 (default, Jun 22 2022, 20:18:18)
    [GCC 9.4.0] on linux
    Type "help", "copyright", "credits" or "license" for more information.
    22/10/08 15:06:11 WARN Utils: Your hostname, DESKTOP-DVUDB98 resolves to a loopback address: 127.0.1.1; using 172.29.214.162 instead (on interface eth0)
    22/10/08 15:06:11 WARN Utils: Set SPARK_LOCAL_IP if you need to bind to another address
    22/10/08 15:06:13 WARN NativeCodeLoader: Unable to load native-hadoop library for your platform... using builtin-java classes where applicable
    Using Spark's default log4j profile: org/apache/spark/log4j-defaults.properties
    Setting default log level to "WARN".
    To adjust logging level use sc.setLogLevel(newLevel). For SparkR, use setLogLevel(newLevel).
    Welcome to
          ____              __
         / __/__  ___ _____/ /__
        _\ \/ _ \/ _ `/ __/  '_/
       /__ / .__/\_,_/_/ /_/\_\   version 3.1.2
          /_/
    Using Python version 3.8.10 (default, Jun 22 2022 20:18:18)
    Spark context Web UI available at http://172.29.214.162:4040
    Spark context available as 'sc' (master = local[*], app id = local-1665237974112).
    SparkSession available as 'spark'.
    >>>

You can observe some interesting messages here, such as the Spark version and the Python used from PySpark.

  1. Finally, we exit the interactive shell as follows:
    >>> exit()
    $

How it works…

As seen at the beginning of this recipe, Spark is a robust framework that runs on top of the JVM. It is also an open source tool for creating resilient and distributed processing output from vast data. With the growth in popularity of the Python language in the past few years, it became necessary to have a solution that adapts Spark to run alongside Python.

PySpark is an interface that interacts with Spark APIs via Py4J, dynamically allowing Python code to interact with the JVM. We first need to have Java installed on our OS to use Spark. When we install PySpark, it already comes with Spark and Py4J components installed, making it easy to start the application and build the code.

There’s more…

Anaconda is a convenient way to install PySpark and other data science tools. This tool encapsulates all manual processes and has a friendly interface for interacting with and installing Python components, such as NumPy, pandas, or Jupyter:

  1. To install Anaconda, go to the official website and select Products | Anaconda Distribution: https://www.anaconda.com/products/distribution.
  2. Download the distribution according to your OS.

For more detailed information about how to install Anaconda and other powerful commands, refer to https://docs.anaconda.com/.

Using virtualenv with PySpark

It is possible to configure and use virtualenv with PySpark, and Anaconda does it automatically if you choose this type of installation. However, for the other installation methods, we need to make some additional steps to make our Spark cluster (locally or on the server) run it, which includes indicating the virtualenv /bin/ folder and where your PySpark path is.

See also

There is a nice article about this topic, Using VirtualEnv with PySpark, by jzhang, here: https://community.cloudera.com/t5/Community-Articles/Using-VirtualEnv-with-PySpark/ta-p/245932.

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Key benefits

  • Harness best practices to create a Python and PySpark data ingestion pipeline
  • Seamlessly automate and orchestrate your data pipelines using Apache Airflow
  • Build a monitoring framework by integrating the concept of data observability into your pipelines

Description

Data Ingestion with Python Cookbook offers a practical approach to designing and implementing data ingestion pipelines. It presents real-world examples with the most widely recognized open source tools on the market to answer commonly asked questions and overcome challenges. You’ll be introduced to designing and working with or without data schemas, as well as creating monitored pipelines with Airflow and data observability principles, all while following industry best practices. The book also addresses challenges associated with reading different data sources and data formats. As you progress through the book, you’ll gain a broader understanding of error logging best practices, troubleshooting techniques, data orchestration, monitoring, and storing logs for further consultation. By the end of the book, you’ll have a fully automated set that enables you to start ingesting and monitoring your data pipeline effortlessly, facilitating seamless integration with subsequent stages of the ETL process.

Who is this book for?

This book is for data engineers and data enthusiasts seeking a comprehensive understanding of the data ingestion process using popular tools in the open source community. For more advanced learners, this book takes on the theoretical pillars of data governance while providing practical examples of real-world scenarios commonly encountered by data engineers.

What you will learn

  • Implement data observability using monitoring tools
  • Automate your data ingestion pipeline
  • Read analytical and partitioned data, whether schema or non-schema based
  • Debug and prevent data loss through efficient data monitoring and logging
  • Establish data access policies using a data governance framework
  • Construct a data orchestration framework to improve data quality
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Table of Contents

16 Chapters
Part 1: Fundamentals of Data Ingestion Chevron down icon Chevron up icon
Chapter 1: Introduction to Data Ingestion Chevron down icon Chevron up icon
Chapter 2: Principals of Data Access – Accessing Your Data Chevron down icon Chevron up icon
Chapter 3: Data Discovery – Understanding Our Data before Ingesting It Chevron down icon Chevron up icon
Chapter 4: Reading CSV and JSON Files and Solving Problems Chevron down icon Chevron up icon
Chapter 5: Ingesting Data from Structured and Unstructured Databases Chevron down icon Chevron up icon
Chapter 6: Using PySpark with Defined and Non-Defined Schemas Chevron down icon Chevron up icon
Chapter 7: Ingesting Analytical Data Chevron down icon Chevron up icon
Part 2: Structuring the Ingestion Pipeline Chevron down icon Chevron up icon
Chapter 8: Designing Monitored Data Workflows Chevron down icon Chevron up icon
Chapter 9: Putting Everything Together with Airflow Chevron down icon Chevron up icon
Chapter 10: Logging and Monitoring Your Data Ingest in Airflow Chevron down icon Chevron up icon
Chapter 11: Automating Your Data Ingestion Pipelines Chevron down icon Chevron up icon
Chapter 12: Using Data Observability for Debugging, Error Handling, and Preventing Downtime Chevron down icon Chevron up icon
Index Chevron down icon Chevron up icon
Other Books You May Enjoy Chevron down icon Chevron up icon

Customer reviews

Rating distribution
Full star icon Full star icon Full star icon Full star icon Half star icon 4.5
(4 Ratings)
5 star 50%
4 star 50%
3 star 0%
2 star 0%
1 star 0%
Lincoln Nascimento Jun 26, 2023
Full star icon Full star icon Full star icon Full star icon Full star icon 5
The book is amazing, it helped me through daily situations and also gave me new perspectives. The mention to OpenMetadata helped to solve a problem I was facing in my current company. I recommend for new and seasoned Data Engineers.
Amazon Verified review Amazon
Om S Jul 10, 2023
Full star icon Full star icon Full star icon Full star icon Full star icon 5
"Data Ingestion with Python Cookbook" is a practical and comprehensive guide that equips data engineers and enthusiasts with the knowledge and skills to design and implement efficient data ingestion pipelines. The book seamlessly blends industry best practices with real-world examples, utilizing popular open-source tools to overcome common challenges in the field.From data schema design to creating monitored pipelines with Apache Airflow, the book covers a wide range of topics essential for building robust data ingestion processes. Readers learn to integrate data observability principles into their pipelines, ensuring data quality and facilitating troubleshooting. The book also addresses the complexities of reading various data sources and formats, offering practical solutions and techniques.Throughout the book, readers gain insights into error logging best practices, data orchestration, monitoring, and establishing data access policies through a data governance framework. With a focus on automation and efficiency, the book empowers readers to effortlessly ingest and monitor their data pipelines, laying the foundation for seamless integration with subsequent stages of the ETL process."Data Ingestion with Python Cookbook" is a valuable resource for data engineers and enthusiasts seeking a comprehensive understanding of data ingestion using popular open-source tools. Whether you're a beginner or an advanced learner, this book provides practical examples and theoretical pillars of data governance to address real-world scenarios encountered in data engineering projects.
Amazon Verified review Amazon
Vinoth Jun 28, 2023
Full star icon Full star icon Full star icon Full star icon Empty star icon 4
The book covers life cycle of Data ingestion process (ingesting, monitoring & errors). Author goes in depth about Data Discovery ,Ingesting Data from Structured and Unstructured Databases, PySpark with Defined and Non-Defined Schemas, Designing Monitored Data Workflows, Airflow, Logging and Monitoring Data Ingest in Airflow, Automating Data Ingestion Pipelines, Data Observability for Debugging, Error Handling, and Preventing Downtime. Throughout the book there are lots of examples with code. Highly recommend this book for entry level and experienced data engineers.
Amazon Verified review Amazon
Rashi Garg Aug 07, 2023
Full star icon Full star icon Full star icon Full star icon Empty star icon 4
I just finished reading this book last week. Having worked in data engineering field more than 10 years now , I found this book a great resource for someone who wants to build skills as a hands-on data-engineer . It offers a practical explanation of the data ingestion lifecycle, covering aspects like data discovery, ingestion from various databases, PySpark usage with different schemas, monitored workflows design, Airflow integration, error handling. The book's focus on open-source tools and real-world scenarios equips readers with skills to build efficient pipelines, ensure data quality, and troubleshoot effectively. I really liked the last section of data observability in the book where it covers the statsd , prometheus and grafana setup.Though I would have loved to more details on another popular data engineering stack Dbt,Snowflake, Yet fundamentals of building scalable data pipelines will remain the same regardless of the tech stack. I would highly recommend this book for data engineers seeking practical guidance and understanding of data ingestion challenges and solutions.
Amazon Verified review Amazon
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Trackable service with delivery to addresses in Australia only.
Delivery time ranges from 7-9 business days for VIC and 8-10 business days for Interstate metro
Delivery time is up to 15 business days for remote areas of WA, NT & QLD.

Premium: Delivery to addresses in Australia only
Trackable delivery to most P. O. Boxes and private residences in Australia within 4-5 days based on the distance to a destination following dispatch.

India:

Premium: Delivery to most Indian addresses within 5-6 business days

Rest of the World:

Premium: Countries in the American continent: Trackable delivery to most countries within 4-7 business days

Asia:

Premium: Delivery to most Asian addresses within 5-9 business days

Disclaimer:
All orders received before 5 PM U.K time would start printing from the next business day. So the estimated delivery times start from the next day as well. Orders received after 5 PM U.K time (in our internal systems) on a business day or anytime on the weekend will begin printing the second to next business day. For example, an order placed at 11 AM today will begin printing tomorrow, whereas an order placed at 9 PM tonight will begin printing the day after tomorrow.


Unfortunately, due to several restrictions, we are unable to ship to the following countries:

  1. Afghanistan
  2. American Samoa
  3. Belarus
  4. Brunei Darussalam
  5. Central African Republic
  6. The Democratic Republic of Congo
  7. Eritrea
  8. Guinea-bissau
  9. Iran
  10. Lebanon
  11. Libiya Arab Jamahriya
  12. Somalia
  13. Sudan
  14. Russian Federation
  15. Syrian Arab Republic
  16. Ukraine
  17. Venezuela