Tools and Softwares for adademic reserach

Server command

• GPU server at Stanford ssh -Y yufeng@10.109.1.20
• GPU server at CUPB ssh -X wyf@192.168.187.103 (IP: 192.168.187.x)

• CPU server at CUPB ssh -X zhouhui@192.168.100.x (IP: 192.168.102.x)

• kill -9 PID to kill process on GPUs with PID in nvidia-smi.

• evince text.pdf to display pdf.

• rsync is a utility for efficiently transferring and synchronizing files between a computer and an external hard drive and across networked computers by comparing the modification times and sizes of files.

  rsync -r -v ./text.md yufeng@10.109.1.20:/home/yufeng/

  rsync -r -v yufeng@10.109.1.20:/home/yufeng/ ./text.md

Programming language

• Rstudio How to install

• Python

• CME 193 - Introduction to Scientific Python

• Scipy is a Python-based ecosystem of open-source software for mathematics, science, and engineering. In particular, these are some of the core packages:

  • NumPy is the fundamental package for scientific computing with Python.
  • [Matplotlib]()
  • [SciPy library]()
  • [pandas]()
    

• C++

General tools

• Library Genesis for downloading books.

• Scihub for downloading journal papers.

• slides is a place for creating, presenting and sharing slide decks.

• Inkscape is a professional vector graphics editor for Windows, Mac OS X and Linux. It’s free and open source.

• pdftk is our friendly graphical tool for quickly merging and splitting PDF documents and pages.

• The Convert Command

• [Texlive]() and [Texmaker]() for Latex.

• TeXmacs

• [Sublime]()

• Visual Studio Code

• Overleaf is the easy to use, online, collaborative LaTeX editor.

• Beamer theme Matrix

• Beamer theme gallery

• Latex symbols

• Quizlet is the easiest way to study, practice and master what you’re learning.

• [Anaconda]()

• Jupyter nbviewer is A simple way to share Jupyter Notebooks.

• Pandoc

• [Markdown]()

  • Dillinger is an online Markdown editor.
  • Typora is Markdown editor, Markdown reader.

• Git is a free and open source distributed version control system designed to handle everything from small to very large projects with speed and efficiency.

  • Bitbucket
    

• brew

• [Matlab]()

• [CUDA]()

• Chebfun is an open-source package for computing with functions to about 15-digit accuracy.

• Intel Parallel Studio XE 2015 (How to Install)

  tar zxvf parallel_studio_xe_2015.tgz
  cd  parallel_studio_xe_2015
  ./install.sh
  

  source $HOME/intel/composer_xe_2015.0.090/bin/iccvars.shintel64
  source $HOME/intel/composer_xe_2015.0.090/bin/ifortvars.shintel64
  source $HOME/intel/composer_xe_2015.0.090/mkl/bin/mklvars.sh intel64
  

Algorithms

• cuFFT

• P3DFFT

• SFFT

Specific softwares in Geophysics

• [Madagascar]()

• [SeismicUnix]()

• Obspy is an open-source project dedicated to provide a Python framework for processing seismological data.