Category Archives: macOS

Create Linux VM running CentOS 7.3 minimal with pyodbc and Netezza Client

Database, Linux, macOS, Netezza

This document describes how to create Linux Virtual Machine (VM) to be run on macOS or Windows Host. When followed the steps in this document, you will have CentOS 7.3 VM capable of running Netezza Linux Client, unixODBC, Python 3.6 with pyodbc and pandas among others. This setup is useful for developing Python code which needs Netezza connection.

Especially macOS users will benefit from this kind of setup, since there is no Netezza client for macOS.

This document concentrates on deploying the VM on VirtualBox, but the CentOS setup portion is identical also when using other hypervisors ie. VMWare Player, VMWare Workstation or VMWare Fusion.

Note: The LinuxVM created in this documented has all capabilities on Python 3.6. You execute python code calling python3.6 instead of just python, which points to python 2.75.

Install CentOS 7.3 on VirtualBox

  1. Download newest version of VirtualBox and install it: https://www.virtualbox.org/wiki/Downloads
  2. Once installed go to VirtualBox menu and choose “Preferences” and click “Network”.
  3. Click “Host-only Networks” and choose icon add: 
  4. Now you have new “Host-only Network” which is needed for incoming connections. You can check the details by double clicking vboxnet0:
  5. Next create VM with two network adapters:
    1. Choose “New” and select “Name”, “Type” and “Version”:
    2. Click continue. You can keep the memory on 1024MB which is the default.
    3. Click continue and choose “Create virtual hard disk now” and click “Create”.
    4.  “Hard disk type” can be VDI, if you do not plan to run VM on other hypervisors, but if you plan to run it on VMWare hypervisor, choose VMDK. Click “Continue”.
    5. For flexibility choose “Dynamically allocated” and for best performance choose “Fixed size”.
    6. For most purposes 8.0GB is enough, but your needs may vary. Choose “Create”.
    7. Now VM is created, but we need to change some of the network settings:
      1. While new VM is highlighted, choose “Settings” and select “Network” tab.
      2. “Adapter 1” default settings are ok for most cases, but we need to add “Adapter 2” so click “Adapter 2”. We need 2nd Network card for incoming connections, so we select “Enable Network Adapter” and set “Attached to: Host-only Adapter”:
      3. Click “OK”.
  6. We need to have CentOS minimal installation image which we can download from CentOS site: https://www.centos.org/download/
  7. Choose your download site and store the image to desired location. We need it only during intallation.
  8. Once downloaded, go back to VM Settings on virtual box:
    1. Select “Storage” tab and “Controller: IDE” and click the CDROM icon and then another CDROM icon on right side from “Optical Drive” selection and “Choose Virtual Optical Disk File”.
    2. Select the CentOS minimal installation disk image you downloaded on previous step:

      1. Click “OK”
  9. Now we can start the CentOS minimal installation. Choose “Install….” when VM has booted.
  10. Next we get graphical installation screen. We can keep language settings as default and click “Continue”:
  11. Note when you click the VM, it will grab the mouse. To release the mouse, click left CMD (on MacOS).
  12. Click “Network & Host name”. You can specify your hostname as preferred.
  13. Both Network cards are off by default. Set them both to “ON”.
  14. For both Network cards, click “Configure” and on “General” tab choose “Automatically connect to this network when it is available”:
  15. Click “Done” to get out from Network settings, and click “Installation Destination” to confirm storage device selected by default is correct (no need to change anything). Then click “Done” to get back to main screen and you can start the installation by selecting “Begin Installation”.
  16. During installation set root password and select to create user. In my examples for setting up Netezza client, I have chosen to create “Netezza User” with username “nz”. I will also make this user an administrator:
  17. Once installation is done you can click “Finnish configuration” and then “Reboot”.
  18. VM boots now first time. You can either ssh to the system (from Terminal on MacOS, or using Putty on Windows).
  19. If this is only VM using Host-only network on VirtualBox, it’s likely the IP is 192.168.56.101. You can check the IP for device enp0S8 with command: ip addr show when logged in through VirtualBox console.
  20. After installation first thing to do is to update all packages with yum update command. Either as root give command “yum -y update” or as administrative user as “sudo yum -y update”.

Configure file sharing between Host and Guest OS

You might want to be able to share, for instance your PycharmProjects folder to run Python code you developed directly on LinuxVM. That is a bit of the whole point for the LinuxVM in this case.

To achieve that, you need to enable file sharing. There is few additional steps needed I’l go through below:

  1. You need few additional packages first. Run following commands as root:
    1. yum -y update
    2. yum -y install gcc kernel-devel make bzip2
    3. reboot
  2. Once LinuxVM has rebooted and you have LinuxVM Window active select from menu “Devices” –> “Insert Guest Additions CD Image…” . Then log in to LinuxVM as root via VirtualBox console or ssh again and run following commands:
    1. mkdir /cdrom
    2. mount /dev/cdrom /cdrom
    3. /cdrom/VBoxLinuxAdditions.run
  3. Now select the folder you want to share from your Host OS to LinuxVM. Go to VM settings and choose “Shared Folders” tab and click icon and then choose the folder you want to share:
  4. Note: Make sure you set the mount permanent. No need for automount option, since we do it a bit differently below.
  5. Above we are sharing PycharmProjects folder. We want to have PycharmProjects folder mounted on LinuxVM on nz users home directory. As nz user we first create directory PycharmProjects with command: mkdir $HOME/PycharmProjects
  6. Then as root, we add following entry to /etc/fstab:PycharmProjects /home/nz/PycharmProjects vboxsf uid=nz,gid=nz           0 0

  7. After reboot you should now have your PycharProjects folder mounted with read and write access under nz users home directory.

    Note: The purpose for above share is, that when you develop your Python code with Pycharm on MacOS and if your code needs connection to Netezza, you can not run it on MacOS, since there is no Netezza drivers. Instead, when following this guide, you will be able to run you Pycharm edited code seamlessly on the LinuxVM through ssh connection, and once confirmed to work, you can commit your changes.

Install Python 3.6 with pyodbc, pandas and sqlalchemy

Log in to LinuxVM as root and run following commands:

yum -y update
yum -y install git
yum -y install yum-utils
yum -y groupinstall development
yum -y install https://centos7.iuscommunity.org/ius-release.rpm
yum -y install python36u
yum -y install python36u-pip
yum -y install python36u-devel
pip3.6 install pandas
yum -y install unixODBC-devel
pip3.6 install pyodbc
yum -y install gcc-c++
yum -y install python-devel
yum -y install telnet
yum -y install compat-libstdc++-33.i686
yum -y install zlib-1.2.7-17.el7.i686
yum -y install ncurses-libs-5.9-13.20130511.el7.i686
yum -y install libcom_err-1.42.9-9.el7.i686
yum -y install wget
yum -y install net-tools
pip3.6 install sqlalchemy
pip3.6 install psycopg2

Testing pyodbc

Edit the connection string accordingly:

[nz@nzlinux ~]$ python3.6
Python 3.6.2 (default, Jul 18 2017, 22:59:34) 
[GCC 4.8.5 20150623 (Red Hat 4.8.5-11)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pyodbc
>>> pyodbc.connect(server="nz", database="TEST", dsn="NZSQL", user="admin", PWD="password", autocommit=False)
<pyodbc.Connection object at 0x7f66ef8566b0>

Install Netezza Linux client

First you need to download NPS Linux client from IBM Fix Central

Then, as root run following commands (accept all defaults):

mkdir NPS
cd NPS
tar xvfz ../nz-linuxclient-v7.2.1.4-P2.tar.gz
cd linux
./unpack
cd ../linux64
./unpack

Now, log in as nz user and add following lines to $HOME/.bashrc (modify credentials and server details accordingly: NZ_USER, NZ_PASSWORD and NZ_HOST):

NZ_HOST=netezza.domain.com
NZ_DATABASE=SYSTEM
NZ_USER=admin
NZ_PASSWORD=password
export NZ_HOST NZ_DATABASE NZ_USER NZ_PASSWORD
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/nz/lib64
export PATH=$PATH:/usr/local/nz/bin
export ODBCINI=$HOME/.odbc.ini
export NZ_ODBC_INI_PATH=$HOME

To make above changes effective without logging out and in, you can instead run command: . ./.bashrc

Now you should be able to use nzsql:

[nz@nzlinux ~]$ nzsql
Welcome to nzsql, the IBM Netezza SQL interactive terminal.
Type:  \h for help with SQL commands
       \? for help on internal slash commands
       \g or terminate with semicolon to execute query
       \q to quit
SYSTEM.ADMIN(ADMIN)=>

Setup ODBC

Copy following two files, odbc.ini and odbcinst.ini to /etc as root:

odbc.ini
odbcinst.ini

As nz user create following symlinks:

ln -s /etc/odbcinst.ini .
ln -s /etc/odbc.ini .
ln -s /etc/odbc.ini .odbc.ini
ln -s /etc/odbcinst.ini .odbcinst.ini

 Questions

If you have any questions, please connect with me.

Update

The .odbc.ini and .odbcinst.ini issues seems to be fixed with newer Python versions, so creating symlinks to users home directory nor creating system files under /etc are not anymore required. Just using .odbc.ini and .odbcinst.ini in user’s home directory works now as it is supposed to work.

How to set up SQuirreL SQL Client for Netezza

Database, macOS, Netezza

This article describes how to set up SQuirreL SQL Client for Netezza. There is not much free SQL query tools available for MacOS and Linux, but SQuirreL is an exception. It uses JDBC for connecting to Netezza, so first thing you need is Netezza JDBC driver. Netezza JDBC driver you can find  for example from latest Netezza Linux client, for example (it is inside npsclient.7.2.1.X-PX.tar.gz  as lib/nzjdbc3.jar).

Download and install SQuirreL SQL Client

  1. Download SQuirreL jar installer package from: http://www.squirrelsql.org/
  2. You need to have Java JDK installed to run and install SQuirreL. As of writing this HOWTO latest JDK can be downloaded from: http://www.oracle.com/technetwork/java/javase/downloads/jdk8-downloads-2133151.html
  3. Once the jar installer is downloaded, run it with: java -jar squirrel-sql-3.7.1-MACOSX-install.jar
  4. Accept the defaults and choose which plugins you need. In my example I have chosen plugins “Multi source”, “Data import”, “MySQL”, “Netezza”, “Oracle”, “PostgreSQL”, “Session Scripts”. “Smart Tools”, “SQL Parametrisation”, “SQL Replace” and “SQL Validator” .
  5. Click Next and Done and you have SQuirreL SQL Client installed on you system.

Configure SQuirreL SQL Client for Netezza

Before beginning configuring the driver, you need to have Netezza JDBC driver nzjdbc3.jar stored on you computer. Netezza JDBC driver can be found for example from Netezza Linux Client under the 32bit Linux tar archive.

Configure the Netezza driver

Once SQuirreL SQL Client is started, first thing to do, is to add Netezza JDBC driver to available drivers on SQuirrelL SQL CLient. In Netezza’s case, there is no Netezza driver on list of drivers, so we will add one.

  1. I stored Netezza JDBC driver under $HOME/Java, but you can choose a different location.
  2. Click Drivers tab and and then click  sign to add new driver.
  3. Highlight “Extra Class Path” tab and click “Add” to add the Netezza JDBC driver you have earlier stored to you computer.
  4. Set “Name” to “Netezza”, “Example URL” to “jdbc:netezza://<host>:5480/<dbname>”, “Websitete URL” to “http://ibm.com” and most importantly set “Class Name” to “org.netezza.Driver”. Once done, click “OK”.

Setup connection to Netezza database

Since SQuirreL SQL Client uses JDBC for connecting to database, it can in theory have only one connection per database. So you need to create one connection per database you are working on because of the JDBC limitation. There is commercial tools like RazorSQL which you can have only one database connection and still connect and query all databases with that same connection, but with SQuirreL SQL Client this is not the case.

  1. To set up your first Netezza database connection on SQuirreL SQL Client, select the “Aliases” tab and click  icon, to add new database connection.
  2. From “Driver pull down list select “Netezza”.
  3. Choose “Name” for you connection ie. the database name you are connecting to.
  4. URL is the form you set up when creating the driver: “jdbc:netezza://<host>:5480/<dbname>”. Set “host” and “dbname” accordingly.
  5. Now you can test the connection. Click “Test” and then “Connect”. If connection is unsuccesful, check the trace to find out the reason.
  6. Once alias is created, you can connect to database. Either double click the alaias or right click it and select connect.

Questions?

If you have any questions or feedback, please connect with me.