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Shell (bash)

Homebrew (how to link to a specific version of package?)

brew switch <package name> <version>

Customize (~/.bash_profile)

Prompt

  • bash-git-prompt

    Add the following to ~/.bash_profile,

    if [ -f "$(brew --prefix)/opt/bash-git-prompt/share/gitprompt.sh" ]; then
    GIT_PROMPT_START="\e[0;32m\u\e[0m at \e[0;31m$(scutil --get ComputerName)\e[0m in \e[0;34m\$PWD/\e[0m"
    GIT_PROMPT_END="\n->"
    __GIT_PROMPT_DIR=$(brew --prefix)/opt/bash-git-prompt/share
    source "$(brew --prefix)/opt/bash-git-prompt/share/gitprompt.sh"
fi

SSH login without password

Notes:

  • username: user name, e.g., hchen;
  • remoteserver: remote server, e.g., skynet.colorado.edu.

On local computer, type the following in a terminal

ssh-keygen -t rsa

for convenience, hit enter two times.

On local computer, type the following in a terminal

ssh username@remoteserver mkdir -p ~/.ssh

and enter the password for the account on the remote server (e.g., [email protected]).

On local computer, type the following in a terminal

cat ~/.ssh/id_rsa.pub | ssh username@remoteserver 'cat >> ~/.ssh/authorized_keys'

and enter the password for the account on the remote server (e.g., [email protected]).

Now you can login in username@remoteserver without typing password.

Warning: No xauth data; using fake authentication data for X11 forwarding. on Mac

Add alias ssh="ssh -o 'XAuthLocation=/opt/X11/bin/xauth'" to .bashrc or .bash_profile.

Install libRadtran on Mac

Download all the packages

Extract the downloaded packages to a existing directory (e.g. ~/soft/libradtran/v2.0.1_inst)

  • libradtran v2.0.1

    tar -xvzf libRadtran-2.0.1.tar.gz -C ~/soft/libradtran/v2.0.1_inst --strip-components=1

  • optprop

    tar -xvzf optprop_v2.1.tar.gz -C ~/soft/libradtran/v2.0.1_inst/

  • ic_yang2013

    tar -xvzf ic_yang2013.tar.gz -C ~/soft/libradtran/v2.0.1_inst/data/ic/yang2013/

  • reptran

    tar -xvzf reptran_2015_all.tar.gz -C ~/soft/libradtran/v2.0.1_inst/

Check dependencies

  • Xcode

    Download Xcode from App Store and install command line tools (simply open Xcode).

  • gcc and gfortran

    try:

    which gcc

    which gfortran

    If nothing returns, install gcc through homebrew, e.g.,

    brew install gcc

  • other libraries

    brew install hdf5

    brew install zlib

    brew install netcdf

    brew install gsl

    brew install ndiff

    brew install gawk

    brew install https://raw.githubusercontent.com/Homebrew/homebrew-science/b9fd4d202e6f35cd4897962a05ad90d03d7c91f1/nccmp.rb

    brew install open-mpi

Install libRadtran with GNU make

./configure --prefix=/Users/hchen/soft/libradtran/v2.0.1
make
make check
make install

Notes

  • If Anaconda is installed, remove it from PATH (simply comment out related lines in .bash_profile) before installation;

  • Found a bug in data/ic/yang2013/Makefile and data/ic/yang2013/Makefile.in;

  • After installation, add the following to .bash_profile,

    export LIBRADTRAN_DATA_FILES="/Users/hchen/soft/libradtran/v2.0.1/share/libRadtran/data/"

Setup Python Coding Environment on Mac

  • Download Xcode from App Store

  • Install XQuartz

    • After installation, logout current session and login again.

  • Install Homebrew

    • Open a terminal window, type

      /usr/bin/ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)"

    • Hit enter/return key

    • Type in account password and install

  • Install packages using Homebrew

    • Use type command to check if package has been installed, e.g., type wget
    brew install vim
brew install gcc
brew install wget
brew install hdf5
brew install netcdf

  • Install Anaconda

Delete large number of files

When there are too many files in a directory, it will raise system error of Argument list too long. if one try rm -rf * to delete all files under the directory.

To fix this problem, one can use the following commands instead (e.g., delete all files under current directory)

  1. find ./ -name "*" | xargs rm -f

  2. perl -e 'for(<*>){((stat)[9]<(unlink))}'

Download entire Youtube playlist

youtube-dl -i -f mp4 --yes-playlist 'https://www.youtube.com/watch?v=7Vy8970q0Xc&list=PLwJ2VKmefmxpUJEGB1ff6yUZ5Zd7Gegn2'