pages tagged tool

Installing CheckStyle plugin for Eclipse

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

I recently discovered a tool for checking Java code formatting and other coding style related issues -- CheckStyle. It features a list of style checks such as

...
* Restricts nested boolean operators (&&, ||, &, | and ^) to a specified depth (default = 3).
* Checks for empty blocks.
* Checks for long source files.
...

There's also an Eclipse plugin for it: https://checkstyle.org/eclipse-cs/#!/. The Eclispe update URL is http://eclipse-cs.sf.net/update/. As of at least Eclipse 4.8.0 (Aug., 2018), this update URL no longer works.

There is a caveat at the time I install it:

the plugin's homepage http://eclipse-cs.sourceforge.net/ gives http://sevntu-checkstyle.github.com/sevntu.checkstyle/update-site/ as the installation URL, but it does not work. However on http://eclipse-cs.sourceforge.net/downloads.html a different installation URL http://eclipse-cs.sf.net/update/ is given, which turns out to work correctly. It seems someone has not updated the Web pages consistently. And it has certainly confused some: http://stackoverflow.com/questions/11865025/error-while-installing-check-style-plugin-for-eclipse.

Installing and configuring Thunderbird

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

Install Thunderbird.
Set up accounts
- Add email account with IMP/POP3 server and SMTP server.
- Add sigunature, reply-to address, organization.
Account settings (Edit > Settings (Linux), Tools > Account Settings (macOS))
- Server Settings: set emails to be checked sufficiently frequently, e.g. every 2 minute for work-related accounts.
- Copies & Folders: set sent emails to be bcc-ed to oneself for the purpose of verifying successful sending.
- Composition & Addressing: choose "place my signature below my reply", Add LDAP address server.
- Junk Settings: disable "adaptive junk mail controls for this account";
Preferences (Edit > Preferences (Linux), Thunderbird > Preferences (macOS)):
- Display:
  - Add tags: 'ToDo', 'ToLearn', 'ToDelete'.
  - Formatting:
    - Proportional: serif;
    - Size: 24;
    - Use UTF-8 as default character encodings for incoming and outgoing emails;
    - Check "When possible, use the default character encoding in replies";
- Advanced:
  - Reading & Display: Automatically mark messages as read after reading for 2 seconds.
Set up message filters.
- Ideally recover them from a backup using the add-on "Thunderbird Message Filter Import/Export Enhanced", or
- Re-create them manually following a previously made note of what they were and how they were set up.
Set up saved search folders. Ideally recover them from a backup or a note of what they were and how they were set up.
Install add-ons
- Enigmail
- Expression Search/Google Mail UI
- Extra Folder Columns
- Lightning, connect to Zimbra Calendar
- Markdown Here
- Thunderbird Message Filter Import/Export Enhanced
- TT DeepDark theme
Set up calendars, the Today Pane
Set up contacts, contact groups.
Set up address book. Restore the address book 'Personal Address Book' data by importing previously backed up address book data, using the menu item Window > Address Book (macOS) Tools > Import

... (Linux).
Set up personal dictionary.
- Navigate to the profile directory (~/.thunderbird/XXX/ for Linux and ~/Library/Thunderbird/Profiles/XXX/ for macOS);
- Create a symbolic link from a back-up personal dictionary data file persdict.dat to this path. C.f. http://kb.mozillazine.org/Dictionaries#Personal_dictionary
Profile directory and data

C.f. http://kb.mozillazine.org/Profile_folder-Thunderbird

All the emails data, message filters, and some other configuration data are saved in the Thunderbird profile directory (~/.thunderbird for Linux and ~/Library/Thunderbird/Profiles/).

Sometimes data can be recovered from using the profile directory and data from some other computer.

Open the frequently viewed folders as their own "sticky" tabs.

Installing and configuring Eclipse

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

Last verification: 2020-10-26, macOS version 10.14.6, Eclipse version 2020-09 (4.17.0).

eclipse.ini

Memory size

On macOS, the configuration file

 ../Eclipse.app/Contents/MacOS/eclipse.ini

or for Eclipse 4.5 and later:

 ../Eclipse.app/Contents/Eclipse/eclipse.ini

has

-startup
../../../plugins/org.eclipse.equinox.launcher_1.0.101.R34x_v20080819.jar
--launcher.library
../../../plugins/org.eclipse.equinox.launcher.carbon.macosx_1.0.101.R34x_v20080731
-showsplash
org.eclipse.platform
-vmargs
-Xdock:icon=../Resources/Eclipse.icns
-XstartOnFirstThread
-Xms1024m
-Xmx1536m
-XX:PermSize=256M
-XX:MaxPermSize=512M
-XX:+UseParallelGC
-Dorg.eclipse.swt.internal.carbon.smallFonts

Xms and Xmx are the starting and maximum heap size for JVM running Eclipse, respectively. Heap stores objects, so anything that create large number of objects will require large value for Xmx
PermSize and MaxPermSize are for memory storing classes (data structures, not object instances) so they normally don't need to be large[¹].
-Xss2m sets the Java stack size to 2MB; If it requires very deep level of recursion and can have large inputs, a stack size too small may cause java.lang.StackOverflowError
-XX:+UseParallelGC enables the parallel garbage collector[²].

`-Dorg.eclipse.swt.internal.carbon.smallFonts`

On high-resolution displays, removing

-Dorg.eclipse.swt.internal.carbon.smallFonts

is said to make the font size larger for some GUI elements. But I couldn't notice any difference.

References:

http://apple.stackexchange.com/questions/24621/how-do-increase-font-size-of-eclipse-globally

Preferences

Note preferences are workspace specific and you can export, save, and import preferences metadata using menu File ⟶ Export ⟶ Preferences [³].

Preferences ⟶ General ⟶ Compare/Patch ⟶ enable "Ignore white space"
Preferences ⟶ General ⟶ Keys ⟶ Scheme:Emacs
Preferences ⟶ General ⟶ Network Connections
- ⟶ SSH2: add private keys
Preferences ⟶ General ⟶ Editors
- Check "Allow in-place system editors".
- Size of recently opened files list: 20 (the maximum)
- ⟶ Text Editors:
  - Uncheck "Enable spell checking" to help speeding up text editor.
  - Check "Show print margin".
  - Check "Insert spaces for tabs".
  - Check "Show whitespace characters".
- ⟶ AnyEdit Tools:
  - Convert: Tab width/number of spaces for tab: 4
Preferences ⟶ General ⟶ Appearance
- ⟶ Theme: Dark
- If the "Darkest Dark Theme with DevStyle" plug-in is installed
  - ⟶ Theme: DevStyle Theme
  - ⟶ DevStyle ⟶ Color Themes
    - Workbench theme: Dark Gray (Darkest Dark)
    - Icon colors: Pastels
    - Editor theme: Solarized Dark
    - check "Theme background"
    - check "Enable breadcrumb"
- ⟶ Colors and Fonts ⟶
- ⟶ Basic ⟶ Text Font: Source Code Pro 18
  - ⟶ CVS
    - Outgoing Change (Background): dark green
    - Outgoing Change (Foreground): white
    - Ignored Resource (Background): dark gray
    - Ignored Resource (Foreground): light gray
  - ⟶ Git
    - Uncommitted Change (Background): dark green
    - Uncommitted Change (Foreground): white
    - Ignored Resource (Background): dark gray
    - Ignored Resource (Foreground): light gray
Preferences ⟶ Team ⟶ CVS
- ⟶ Console: Check "Show CVS console automatically when command is run"
- ⟶ Ext Connection: let CVS modules use ext connection method to use Eclipse's extssh connection method. Reference: Eclipse (version 4) documentation Workbench User Guide > Reference > Preferences: CVS Ext Connection Method
  - Check "Use another connection method type to connect";
  - For Connection type, select 'extssh'.
Preferences ⟶ Java ⟶ Editor
- ⟶ Content Assistant: Change "Auto Activation Delay" to 500 ms.

Preferences ⟶ Wolfram (with Wolfram Workbench plugin)

⟶ Editor
- ⟶ Advanced: Editor update delay (ms). I use 1500 ms.
- ⟶ Indenting: Indent with spaces
⟶ Wolfram Cloud
- User name: (email address)

Plug-ins

(If not specifically mentioned, in reasonably modern version of Eclipse, install plug-ins using the menu Help > Eclipse Marketplace.)

UI

DevStyle
- As of Eclipse 4.7, one can install it from Help > Eclipse Marketplace. I use the "Darkest Dark" color theme by setting Preferences ⟶ General ⟶ Appearance ⟶ Theme: DevStyle Theme (Darkest Dark).
- 4.4+: Use Preferences ⟶ General ⟶ Appearance ⟶ Theme: Dark
- Pre-4.4:
  - Jeeeyul's Eclipse Themes, customize UI elements such as window color.
  - Eclipse Color Theme Customize editor styles such as font, background color, etc.

Java

CheckStyle
- As of Eclipse 2020-09, one can install it from Help > Eclipse Marketplace. The name of the plug-in as of Eclipse 2020-09 is "Checkstyle Plug-in 8.35.0".
- As of Eclipse 4.6, one can install it from Help > Eclipse Marketplace. The name of the plug-in as of Eclipse 4.8.0 (Aug., 2018) is "Checkstyle Plug-in 8.12.0".
- Eclipse plug-in site: http://eclipse-cs.sourceforge.net/
- Plug-in repository URL: http://eclipse-cs.sf.net/update/
- Available checks: http://checkstyle.sourceforge.net/availablechecks.html
- Robert Sedgewick's check-style configuration file used for his algorithms course.
- I usually set it to use "Google Checks" in Window > Preferences > CheckStyle > Global Checks Configuration.
FindBugs/SpotBugs
- As of Eclipse version 2018-09 (4.9.0) and Sept. 2018, according to https://github.com/spotbugs/spotbugs, FindBugs has been succeeded by SpotBugs, and install the SpotBugs plug-in from Help > EclipseMarketplace.
- As of Eclipse 4.4, one can install it from Help > Eclipse Marketplace.
- Plug-in repository URL: http://findbugs.cs.umd.edu/eclipse or http://findbugs.cs.umd.edu/eclipse-candidate if the former does not work.
- Robert Sedgewick's FindBugs configuration file used for his algorithms course.
Eclipse Code Recommenders
- As of 2020-10 and Eclipse 2020-09, it reports "repository not available" error when attempting to install it.
- Install it from Help > Eclipse Marketplace.
ObjectAid UML Explorer
- Plug-in repository URL: http://www.objectaid.com/update/current

Uqbar Tomcat XT Eclipse Plug-in

For launch and administer Tomcat's contexts.

As of Eclipse 4.4, one can install it from Help > Eclipse Marketplace.

Scala

Scala IDE.
As of Eclipse 4.4, one can install it from Help > Eclipse Marketplace.
Plug-in repository URL: http://scala-ide.org/download/current.html.

Mathematica

Wolfram Workbench
- As of 2018-10 and Eclipse version 2018-09 (4.9.0), install it manually following the instruction at https://web.archive.org/web/20180108074322/http://support.wolfram.com/kb/27221.
- As of 2017-10, install it from Help > Elcipse Marketplace: http://marketplace.eclipse.org/content/wolfram-workbench-2).

Version control

CVS Integration
- As of at least Eclipse version 2018-09 (4.9.0), to install CVS client,
  1. Help > Install New Software...
  2. Set 'Work with: --All Available Sites--'.
  3. Type filter text 'CVS'.
  4. Install 'Eclipse CVS Client'.
- Since Eclipse 4.5, it is no longer included in Eclipse by default. One can install it by going to the menu Help > Eclipse Marketplace and searching by keyword "CVS Integration"
EGit
- Since Eclipse 4.4, it is included in Eclipse as the built-in Git support.

I don't use Mercurial and SVN any more as of Eclipse 4:

Editing

AnyEdit
- As of Eclipse 4.4, one can install it from Help > Eclispe Marketplace.
- Plug-in repository URL: http://andrei.gmxhome.de/eclipse/.

Programming languages

JSON editor
- As of at least Eclipse 4.7.0 and 2017-8, one can install it from Help > Eclispe Marketplace.
Papyrus: UML modeling support

Misc

Eclipse Mylyn
- Plug-in repository URL: http://download.eclipse.org/mylyn/releases/latest.
- FAQ.
Eclipse Graphical Editing Framework
- Plug-in repository URL: http://download.eclipse.org/tools/gef/updates/releases
OS X Eclipse Launcher
- As of at least Eclipse version 2019-06 (4.12.0) and 2019-6, one can install it from Help > Eclispe Marketplace.
Workspace Badge Plug-in for macOS.
- As of at least Eclipse version 2019-06 (4.12.0) and 2019-6, this is superseded by the OS X Eclipse Launcher plug-in.

References

Eclipse Wiki: FAQ How do I increase the heap size available to Eclipse?

Installing and configuring Gradle

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

Spring Framework guides ''Building Java Projects with Gradle'': http://spring.io/guides/gs/gradle/ is a good reference for this topic.

Install Gradle

On macOS, install with Homebrew

$ brew install gradle
==> Downloading https://services.gradle.org/distributions/gradle-1.12-bin.zip
######################################################################## 100.0%
    /usr/local/Cellar/gradle/1.12: 155 files, 44M, built in 106 seconds$ brew install gradle
==> Downloading https://services.gradle.org/distributions/gradle-1.12-bin.zip
######################################################################## 100.0%
    /usr/local/Cellar/gradle/1.12: 155 files, 44M, built in 106 seconds

Verify it's installed successfully:

$ which gradle
/usr/local/bin/gradle
$ gradle -version

------------------------------------------------------------
Gradle 2.0
------------------------------------------------------------

Build time:   2014-07-01 07:45:34 UTC
Build number: none
Revision:     b6ead6fa452dfdadec484059191eb641d817226c

Groovy:       2.3.3
Ant:          Apache Ant(TM) version 1.9.3 compiled on December 23 2013
JVM:          1.6.0_65 (Apple Inc. 20.65-b04-462)
OS:           macOS 10.9.4 x86_64

Create Gradle-managed Java projects in IntelliJ IDEA

Really, there are just two easy steps:

Create New Project, and then

☝ step 1: pick Gradle, check "Use auto-import", check "Create directories for empty content roots automaticaly", pick JDK version,

☝ step 2: specify settings of the project.

Alternatively, one can create a Java project using Gradle from UNIX command line and optionally import it later into an IDE such as IntelliJ IDEA or Eclipse.

Create a Java project using Gradle

Create a project using Gradle:

$ mkdir gradlehelloworld
$ cd gradlehelloworld
$ gradle init --type java-library
:wrapper
:init

BUILD SUCCESSFUL

Total time: 4.974 secs

Alternatively, use gradle buildInit --type java-library to create it.

It automatically creates the project structure including directories and template files:

$ tree
.
├── build.gradle
├── gradle
│   └── wrapper
│       ├── gradle-wrapper.jar
│       └── gradle-wrapper.properties
├── gradlew
├── gradlew.bat
├── settings.gradle
└── src
    ├── main
    │   └── java
    │       └── Library.java
    └── test
        └── java
            └── LibraryTest.java

7 directories, 8 files

Make a minimal and slightly non-trivial Java program including tests and Gradle build script

I'll rename Library to Main in the file names and source code, and create a toy Java project with a test:

Main.java:

package gradlehelloworld;

import com.google.common.base.Strings;

public class Main {
    public static void main(String[] args) {
        System.out.println(getGreeting("World"));
        System.out.println("My name is " + System.getProperty("gradlehelloworld.name"));
    }

    static String getGreeting(String name) {
        return Strings.repeat(String.format("Hello %s!\n", name), 2);
    }
}

MainTest.java:

package gradlehelloworld;    

import static org.junit.Assert.*;
import static org.hamcrest.CoreMatchers.*;
import org.junit.Test;

public class MainTest {
    @Test
    public void getGreeting() {
        Main classUnderTest = new Main();
        assertThat(classUnderTest.getGreeting("World"),
                   equalTo("Hello World!\nHello World!\n"));
    }
}

Edit the Gradle build script gradlehelloworld/build.gradle:

// Apply the java plugin to add support for Java
apply plugin: 'java'
apply plugin: 'application'

sourceCompatibility = '1.6'

mainClassName = 'gradlehelloworld.Main'

// In this section you declare where to find the dependencies of your project
repositories {
    // Use 'maven central' for resolving your dependencies.
    // You can declare any Maven/Ivy/file repository here.
    mavenCentral()
}

// In this section you declare the dependencies for your production and test code
dependencies {
    // The production code uses the SLF4J logging API at compile time
    // compile 'org.slf4j:slf4j-api:1.7.5'
    compile 'com.google.guava:guava:17.0'

    // Declare the dependency for your favourite test framework you want to use in your tests.
    testCompile 'junit:junit:4.11'
}

run {
    systemProperty 'gradlehelloworld.name', 'FooBar'
}

I added these code in a repository on GitHub. The actual code in the repository is slightly different from the above as I have developed new content and played with variations in it.

Run/build Java project using Gradle

Let Gradle download dependency Guava from Maven Central repository, compile Main.java program, set gradlehelloworld.name to "FooBar", and run it with Guava on the Java classpath:

$ gradle run
:compileJava
Download http://repo1.maven.org/maven2/com/google/guava/guava/17.0/guava-17.0.pom
Download http://repo1.maven.org/maven2/com/google/guava/guava-parent/17.0/guava-parent-17.0.pom
Download http://repo1.maven.org/maven2/com/google/guava/guava/17.0/guava-17.0.jar
:compileJava FAILED

FAILURE: Build failed with an exception.

* What went wrong:
Execution failed for task ':compileJava'.
> invalid source release: 1.8

* Try:
Run with --stacktrace option to get the stack trace. Run with --info or --debug option to get more log output.

BUILD FAILED

Total time: 14.309 secs

If I change

sourceCompatibility = '1.8'

sourceCompatibility = '1.6'

it then works:

$ gradle run
:compileJava
:processResources UP-TO-DATE
:classes
:run
Hello World!
Hello World!

My name is FooBar

BUILD SUCCESSFUL

Total time: 6.13 secs

To use sourceCompatibility = '1.8', it might need to set JAVA_HOME environment variable to value of /usr/libexec/java_home -v 1.8.

Do a full build including running tests:

$ gradle build
:compileJava
:processResources UP-TO-DATE
:classes
:jar UP-TO-DATE
:assemble UP-TO-DATE
:compileTestJava UP-TO-DATE
:processTestResources UP-TO-DATE
:testClasses UP-TO-DATE
:test UP-TO-DATE
:check UP-TO-DATE
:build UP-TO-DATE

BUILD SUCCESSFUL

Total time: 6.489 secs

Check the test report at

./build/reports/tests/index.html

Remarks:

Note it uses assertThat instead of assertTrue

assertTrue(classUnderTest.getGreeting("World"), equalTo("Hello World!\nHello World!\n"));

assertThat(classUnderTest.getGreeting("World"), equalTo("Hello World!\nHello World!\n"));

Note the use of import static (c.f. a related stackoverflow.com thread.)

At this point your project structure looks like:

$ tree
.
├── build
│   ├── classes
│   │   ├── main
│   │   │   ├── gradle_hello_world
│   │   │   │   └── Main.class
│   │   │   └── gradlehelloworld
│   │   │       └── Main.class
│   │   └── test
│   │       └── gradlehelloworld
│   │           └── MainTest.class
│   ├── dependency-cache
│   ├── libs
│   │   ├── gradle_hello_world.jar
│   │   └── gradlehelloworld.jar
│   ├── reports
│   │   └── tests
│   │       ├── classes
│   │       │   ├── css
│   │       │   │   ├── base-style.css
│   │       │   │   └── style.css
│   │       │   ├── gradlehelloworld.MainTest.html
│   │       │   ├── htc
│   │       │   │   └── css3-pie-1.0beta3.htc
│   │       │   └── js
│   │       │       └── report.js
│   │       ├── css
│   │       │   ├── base-style.css
│   │       │   └── style.css
│   │       ├── htc
│   │       │   └── css3-pie-1.0beta3.htc
│   │       ├── index.html
│   │       ├── js
│   │       │   └── report.js
│   │       └── packages
│   │           ├── css
│   │           │   ├── base-style.css
│   │           │   └── style.css
│   │           ├── gradlehelloworld.html
│   │           ├── htc
│   │           │   └── css3-pie-1.0beta3.htc
│   │           └── js
│   │               └── report.js
│   ├── test-results
│   │   ├── TEST-gradlehelloworld.MainTest.xml
│   │   └── binary
│   │       └── test
│   │           ├── output.bin
│   │           ├── output.bin.idx
│   │           └── results.bin
│   └── tmp
│       └── jar
│           └── MANIFEST.MF
├── build.gradle
├── build.gradle~
├── gradle
│   └── wrapper
│       ├── gradle-wrapper.jar
│       └── gradle-wrapper.properties
├── gradlew
├── gradlew.bat
├── settings.gradle
├── settings.gradle~
└── src
    ├── main
    │   └── java
    │       ├── Main.java
    │       └── Main.java~
    └── test
        └── java
            ├── MainTest.java
            └── MainTest.java~

34 directories, 37 files

The build/ sub-directory contains the build, Java doc pages, JUnit test reports, etc.

Import the project into IntelliJ IDEA

IntelliJ IDEA is a popular IDE for Java. One can import the Gradle project created above to the IDE.

Import the Gradle project into IntelliJ IDEA, by following the documentation instruction "Importing Project from Gradle Model". For project settings, I just chose "Use default gradle wrapper (recommended)", which seems to cause a predefined set of tasks to be created in the Gradle tool window such as "compile", "build", "clean", etc.
It turns out that the depended packages need to be separately specified in IntelliJ IDEA in addition to build.gradle. Namely, download the com.google.guava library by following the instruction in documentation -- I picked com.google.guava:guava:17 (format is package:artifact:version) to download. (Warning: in IntelliJ IDEA 13.1, I found that one sometimes need to hit the magnifier icon multiple times for it to find a specific artifact from Maven. So don't get confused if it does not find it the first time.)
Add the library as a "project library" (by following the automatically prompted window after step 2) or as a global library, by following the documentation instruction "Configuring Project and Global Libraries".
Specify that your Java module depends on the com.google.guava package, following the documentation instruction "Configuring Module Dependencies and Libraries";
If the IDE still reports "Cannot resolve symbol 'google'" and highlights 'google' as red in import com.google.common.base.Strings, one may try using File | Invalidate Caches / Restart … to force the rebuilding of syntax highlighting in the editor window.
One can then open the Gradle tool window, and run the various Gradle tasks such as "compile", "build", and "clean".

Run Gradle tasks from IntelliJ IDEA Gradle Tool Window

The official IntelliJ IDEA documentation ''Gradle Tool Window'' to get an introduction. Hitting build under "All tasks" is equivalent to running gradle build at UNIX command line. It generates /build under project root path. Note JUnit test report is at /build/reports/tests/; Similarly, compileJava compiles Java and javadoc creates Javadoc pages in /build/javadoc/. See Gradle documentation for the list of Gradle tasks.

References

Spring Framework guides ''Building Java Projects with Gradle'': http://spring.io/guides/gs/gradle/
http://www.gradle.org/docs/1.12/userguide/tutorial_java_projects.html

Installing and configuring IntelliJ IDEA

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

Installation on Linux

Restore configuration directory $HOME/.IntellJIdea14/.

Configuration

Configure font for console. I use font 'Source Code Pro for Powerline' and size 14.

Plug-ins

Pegdown Doclet for IDEA: writing documentation using Markdown. See my example using Markdown in Javadoc here (note gradle.build and Main.java).
Mathematica Support, develop Mathematica / Wolfram Language code in IntelliJ IDEA.
- Preferences | Editor | Coding Style | Mathematica: set tab size to '4'.
Mathematica REPL, connect IntelliJ IDEA to Mathematica kernel.
MultiMarkdown or Markdown (from the "Browse repositories ..." menu)
IntelliJ-Haskell (from the "Install JetBrains plugin..." menu)

References

Eclipse Wiki: FAQ How do I increase the heap size available to Eclipse?

Installing and configuring Mathematica

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

`$UserBaseDirectory/Kernel/init.m`

Make a symbolic link from a version controlled init.m to $UserBaseDirectory/Kernel/init.m. It 1) defines some environment variables such as

SetEnvironment["$DropboxDirectory" -> FileNameJoin[{$HomeDirectory, "Dropbox"}]]

and 2) loads some packages that I use frequently enough that loading them every time is convenient:

<< meng`

`$UserBaseDirectory/SystemFiles/FrondEnd/Stylesheets`

Make a symbolic link from a version controlled directory of stylesheets path/to/Stylesheets/ to $UserBaseDirectory/SystemFiles/FrondEnd/Stylesheets so your own stylesheets is readily accessible from menu Format > Stylesheets and you can keep them update-to-date with its version control repository.

Install SSL certificates

Sometimes, in order to operate with some Web sites with functions like URLFetch, additional SSL certificates associated with the site needs to be appended in

FileNameJoin[{$InstallationDirectory, "SystemFiles", "Links", "HTTPClient", "SSL", "cacert.pem"}]

This will allow HTTPClient to use the SSL certificate for authentication.

`FrequentlyRunCommands.nb`

I have a notebook where I record all the frequently run commands for quick reuse. It can be set to automatically open when Mathematica starts.

Format → Option Inspector
choose "Global Preference"
Global Options → File Locations → AutoOpenNotebooks
Set value to "/path/to/notebook.nb"; separate notebooks by linebreaks

Preferences

Mail server

Preferences > Internet Connectivity > Mail Settings.

Interface

Preferences > Interface > Show open/close icon for cell groups

Uninstalling

See Wolfram documentation.

When having multiple versions installed, to uninstall one of them, delete

/usr/local/Wolfram/Mathematica/VERSION

Replace VERSION with the version number you would like to delete.

Permission of .ssh files

Thu, 26 Feb 2015 00:32:53 +0000

A brief note about the file permissions of $HOME/.ssh files:

$ ls -la ~/.ssh
total 136
drwx------   17 meng  _lpoperator    578 Feb  8 11:54 .
drwxr-xr-x+ 115 meng  _lpoperator   3910 Feb 25 16:10 ..
-rw-------    1 meng  _lpoperator   1671 Feb  8 11:54 config
-rw-------    1 meng  _lpoperator   1631 Jan 28 21:55 config~
drwxr-xr-x    4 meng  _lpoperator    136 Oct 27 15:16 git-annex
-rw-------    1 meng  _lpoperator   3243 Jan 28 20:47 id_rsa_work
-rw-r--r--    1 meng  _lpoperator    748 Jan 28 20:47 id_rsa_work.pub
-rw-------    1 meng  _lpoperator   1743 Jan 15  2012 id_rsa_lumengdev
-rw-r--r--    1 meng  _lpoperator    402 Jan 15  2012 id_rsa_lumengdev.pub
-rw-r--r--    1 meng  _lpoperator  10174 Feb 19 10:37 known_hosts
-rw-r--r--    1 meng  _lpoperator   7577 Oct  9 15:29 known_hosts~

$HOME/.ssh folder should have permission 700.
config and private/secret key files id_rsa_XXX should have 600.
known_hosts and public/shared key files id_rsa_XXX.public should have 644. And it's fine to have serveral pairs of private/secret and public/shared key files.

Check the default permissions of `.ssh`

Run ssh <host> will create $HOME/.ssh and $HOME/.ssh/known_hosts file and add an entry for the <host> in it. Running ssh-keygen will create the public/shared and private/secret key pair files: $HOME/.ssh/id_rsa.pub and $HOME/.ssh/id_rsa. Their default permissions are

16:24:06 meng@mycomputer:~/.ssh$ ls -la
total 24
drwx------    5 meng  _lpoperator   170 Feb 25 16:24 .
drwxr-xr-x+ 116 meng  _lpoperator  3944 Feb 25 16:23 ..
-rw-------    1 meng  _lpoperator  1766 Feb 25 16:24 id_rsa
-rw-r--r--    1 meng  _lpoperator   404 Feb 25 16:24 id_rsa.pub
-rw-r--r--    1 meng  _lpoperator   414 Feb 25 16:23 known_hosts
16:24:11 meng@mycomputer:~/.ssh$ ssh -version
OpenSSH_6.2p2, OSSLShim 0.9.8r 8 Dec 2011

References

http://superuser.com/questions/488718/permissions-on-ssh-causing-problems

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Permission of .ssh files

Check the default permissions of .ssh

References

`-Dorg.eclipse.swt.internal.carbon.smallFonts`

`$UserBaseDirectory/Kernel/init.m`

`$UserBaseDirectory/SystemFiles/FrondEnd/Stylesheets`

`FrequentlyRunCommands.nb`

Check the default permissions of `.ssh`