pages tagged linux

Installing and configuring Python on Ubuntu Linux

Tue, 16 May 2017 23:59:39 +0000

Install system packages

sudo apt-get install gfortran libopenblas-base libopenblas-dev libzmq3-dev
sudo apt-get install python-qt4 python-zmq

The following shew up as dependencies when I tried to install matplotlib in a virtual environment using pip install matplotlib:

sudo apt-get install libfreetype6-dev libpng12-dev

Install Python

sudo apt-get install python python-pip python-dev build-essentials
sudo apt-get install python3 python3-pip

Install IPython

sudo apt-get install ipython python-notebook

To install IPython with Python 3 [¹]:

sudo apt-get install ipython3 python3-notebook

Install Python packages

Use Ubuntu's package management system `apt-get`:

sudo apt-get install python-matplotlib
sudo apt-get install virtualenv vurtualenvwrapper

Use Python package management system `pip`:

pip install "ipython[all]"
pip install virtualenv
pip install virtualenvwrapper
pip install numpy
pip install scipy
pip install matplotlib
pip install pyzmq
pip install pygments

Use Anaconda Python distribution and its package management and environment management

This part is same on macOS or Ubuntu Linux. See installing and configuring Python on macOS.

Other packages

GraphLab, a machine-learning package

This part is same on macOS or Ubuntu Linux. See installing and configuring Python on macOS.

References

It used to be that ipython has to be installed via pip3, but I think this has been superseded by the above as of Ubuntu 15.10 and Mar. 2016 at least:

pip3 install ipython
↩

Installing and configuring Git

Tue, 16 May 2017 23:59:39 +0000

Configure `.gitignore`

# use glob syntax
syntax: glob

# specific files
tempfile

# back up files
.DS_Store
._*
*~
.nfs.*
#*#
*.bak
*.old

# logs
derby.log
#derby db
lift_example

# eclipse conf file
#.settings
#.classpath
#.project
.manager

# building
target
build
null
tmp*
temp*
dist
test-output

# Java
*.class

# other scm
.svn
.CVS
.hg*


# use regexp syntax
syntax: regexp
#^\.pc/

Installing more recent Git in Ubuntu 12 than its repositories standardly offer

sudo apt-get install software-properties-common python-software-properties
sudo add-apt-repository ppa:git-core/ppa
sudo apt-get update
sudo apt-get install git

Alternatively install the other Git-related packages:

sudo apt-get install git-daemon-run git-daemon-sysvinit git-el git-email git-gui gitk gitweb git-arch git-cvs git-mediawiki

References:
- https://launchpad.net/~git-core/+archive/ubuntu/ppa
- https://help.ubuntu.com/community/Repositories/Ubuntu

`help.autoCorrect`

There is an auto-correction feature in Git which can be turned on by:

git config --global help.autoCorrect 15

See a terminal session recording: https://showterm.io/189e7798324029948ac3c

I think this is a potentially dangerous feature to use (at least for production purposes) with limited benefit. I decided to not use it. In fact, it's better to set git config --global help.autocorrect 0 to indicate this configuration preference explicitly.

`.git/config`

Example .git/config file that sets multiple remote repositories. Note the instances of XXX do not ALWAYS represent the same string that need to be replaced by your real-world information.

[core]
    repositoryformatversion = 0
    filemode = true
    bare = false
    logallrefupdates = true
    ignorecase = true
[remote "origin"]
    url = https://XXX@github.com/XXX/XXX.git
    pushurl = https://XXX@github.com/XXX/XXX.git
    pushurl = git@gitlab.com-XXX:XXX/XXX.git
    pushurl = git@bitbucket.org-XXX:XXX/XXX.git
    fetch = +refs/heads/*:refs/remotes/origin/*
[remote "bitbucket"]
    url = git@bitbucket.org-XXX:XXX/XXX.git
    fetch = +refs/heads/*:refs/remotes/bitbucket/*
[remote "gitlab"]
    url = git@gitlab.com-XXX:XXX/XXX.git
    fetch = +refs/heads/*:refs/remotes/gitlab/*
[branch "master"]
    remote = origin
    merge = refs/heads/master
[user]
    name = XXX XXX
    email = XXX@XXX.com

# END

Installing and configuring Java on Linux

Tue, 16 May 2017 23:59:39 +0000

This is a note on my experience of installing Java on Ubuntu Linux 14.04.

The default Java packages on Ubuntu Linux openjdk-7-jdk is from OpenJDK. It should be more or less consistent with Java Language and Virtual Machine Specifications. However, on macOS computers, I use Oracle's JDKs for developing Java programs, and some softwares I use such as Android Studio warns that using OpenJDK can be problematic and recommends using Oracle's JDK instead. Therefore, I install Oracle's Java as a standard component on my Linux computers as well. Oracle calls it "Java Platform (JDK) Platform". JDK is Java Development Kit which is the software package one needs to do Java software development. It's currently at version "Java SE 7" and is updated to "JDK SE 8" in March 2014.

Installing Oracle JDK 7 using ppa

Install dependency:

sudo apt-get install python-software-properties

Install Oracle JDK using Webup8.org's PPA:

sudo add-apt-repository ppa:webupd8team/java
sudo apt-get update
sudo apt-get install oracle-java7-installer
# or if you want JDK 8:
# sudo apt-get install oracle-java8-installer

At command line verify java is pointing to Oracle JDK 7,

$ which java
/usr/bin/java
$ ls -la /usr/bin/java
lrwxrwxrwx 1 root 22 Jan 24 07:16 /usr/bin/java -> /etc/alternatives/java*
$ ls -la /etc/alternatives/java
lrwxrwxrwx 1 root 39 Jul  8 12:04 /etc/alternatives/java -> /usr/lib/jvm/java-7-oracle/jre/bin/java*

Installing Oracle JDK 8

$ sudo apt-get install oracle-java8-installer

Choosing default Java

Choose Java 7 as the default for java and javac:

$ java -version
java version "1.8.0_45"
Java(TM) SE Runtime Environment (build 1.8.0_45-b14)
Java HotSpot(TM) 64-Bit Server VM (build 25.45-b02, mixed mode)
$ sudo update-alternatives --config java
There are 3 choices for the alternative java (providing /usr/bin/java).

  Selection    Path                                            Priority   Status
------------------------------------------------------------
* 0            /usr/lib/jvm/java-8-oracle/jre/bin/java          1073      auto mode
  1            /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/java   1071      manual mode
  2            /usr/lib/jvm/java-7-oracle/jre/bin/java          1072      manual mode
  3            /usr/lib/jvm/java-8-oracle/jre/bin/java          1073      manual mode

Press enter to keep the current choice[*], or type selection number: 2
update-alternatives: using /usr/lib/jvm/java-7-oracle/jre/bin/java to provide /usr/bin/java (java) in manual mode
$ sudo update-alternatives --config javac
There are 3 choices for the alternative javac (providing /usr/bin/javac).

  Selection    Path                                         Priority   Status
------------------------------------------------------------
* 0            /usr/lib/jvm/java-8-oracle/bin/javac          1073      auto mode
  1            /usr/lib/jvm/java-7-openjdk-amd64/bin/javac   1071      manual mode
  2            /usr/lib/jvm/java-7-oracle/bin/javac          1072      manual mode
  3            /usr/lib/jvm/java-8-oracle/bin/javac          1073      manual mode

Press enter to keep the current choice[*], or type selection number: 2
update-alternatives: using /usr/lib/jvm/java-7-oracle/bin/javac to provide /usr/bin/javac (javac) in manual mode
$ java -version
java version "1.7.0_80"
Java(TM) SE Runtime Environment (build 1.7.0_80-b15)
Java HotSpot(TM) 64-Bit Server VM (build 24.80-b11, mixed mode)

Setting the `JAVA_HOME` environment variable

On Ubuntu Linux, system environment variable can be set in /etc/environment by adding the line

JAVA_HOME="/usr/lib/jvm/java-7-oracle"

Alternatively, set it in $HOME/.bashrc or $HOME/.bash_profile

References

digitalocean.com,〈How To Install Java on Ubuntu with Apt-Get〉
http://askubuntu.com/questions/56104/how-can-i-install-sun-oracles-proprietary-java-jdk-6-7-8-or-jre
webup8.org,〈INSTALL ORACLE JAVA 7 IN UBUNTU OR LINUX MINT VIA PPA REPOSITORY〉
webup8.org,〈INSTALL ORACLE JAVA 8 IN UBUNTU OR LINUX MINT VIA PPA REPOSITORY〉
〈java.com documentation: Information and system requirements for installing and using Mac Java 7〉

pages tagged linux

Installing and configuring Python on Ubuntu Linux

Install system packages

Install Python

Install IPython

Install Python packages

Use Ubuntu's package management system apt-get:

Use Python package management system pip:

Use Anaconda Python distribution and its package management and environment management

Other packages

GraphLab, a machine-learning package

References

Installing and configuring Git

Configure .gitignore

Installing more recent Git in Ubuntu 12 than its repositories standardly offer

help.autoCorrect

.git/config

Installing and configuring Java on Linux

Installing Oracle JDK 7 using ppa

Installing Oracle JDK 8

Choosing default Java

Setting the JAVA_HOME environment variable

References

Use Ubuntu's package management system `apt-get`:

Use Python package management system `pip`:

Configure `.gitignore`

`help.autoCorrect`

`.git/config`

Setting the `JAVA_HOME` environment variable