Technical and Specialized Skills

This article will present a list of the technical and specialized skills I have as wells as links to articles I have written on each of them. I have been actively and professionally involved with the majority of the following since May 2000 (see: Curriculum Vitae for details).

• Legend:

  = beginner

  = basic

  = intermediate

  = advanced

Computer operating systems

• Primary OS: Linux (32-bit/64-bit; distros: CentOS {favourite}, SuSE, Mandriva, Slackware, and Ubuntu)
• Gentoo (still learning but loving this distro!)
• Unix (used this during my time in academia)
• Mac OS

Cloud computing and virtual environments

• KVM
• XenServer
• OpenStack
• Qstack
• Ansible
• Chef
• Vagrant
• Sensu
• Nagios
• Docker
• Rancher
• Kubernetes
• Terraform
• Amazon Web Services (AWS)
• Rackspace
• DigitalOcean
• RabbitMQ
• GoCD

Computer languages, scripting, etc

• Python (+Pandas) — 2006-present
• Perl (+CGI) — 1999-present
• C (+MPI/MPICH) — 2000-present
• Fortran 77 — 2004-present
• MySQL — 2002-present

Web Oriented

• PHP (+PEAR, Smarty)
• RESTful APIs (especially via cURL and/or Python's urllib module; see this article for lots of examples)
• Cascading Style Sheets (CSS; I use Bootstrap for all of my projects)
• HTML/XHTML
• Django
• web2py
• Ajax
• JavaScript
• SOAP
• mod_rewrite / .htaccess / robots.txt

Shell scripting languages and techniques

 see: Category:Linux Command Line Tools and Category:Scripting languages for detailed listing.

• awk / gawk
• sed
• Bash
• zsh (my newest and favourite shell. Still learning all that it has to offer, which is a lot!)
• csh / tcsh
• man (i.e., creating man pages for custom apps)
• make / gmake (I use this for more than just compiling code!)
• regular expressions

Graphical scripts

• PostScript (and PDF)
• R (programming language)
• TeX / LaTeX
• ImageMagick

Linux Systems Administration, Networking, and Security

Note: Everything listed here is Linux-related.

• Remote login, file transfer, etc.: SSH (+scp), rsync, FTP, dsh (Distributed Shell), sshpass, GNU parallel
• Firewall: iptables (via the CLI and, e.g., Gibralter)
• Troubleshooting toolbox: iostat, sysstat, tcpdump, ethtool, netcat / nc, telnet, ps, dmesg, top / htop, free, dmidecode, mtr, bwm-ng, ping / fping, dig, traceroute, /proc files, /var/log files, curl, wget, strace, find, lsof, lspci, modprobe/lsmod, netstat, grep, etc.
• crontab
• Network filesystems: NFS, NTFS, NAS, Samba, etc.
• Tape drives (mt/st)
• Email Server (e.g., Postfix)
• Printing: CUPS
• openPBS
• GPG / PGP
• Etc., etc.

Databases

• MySQL / MariaDB
• SQLite

Web Applications

Note: The following is an incomplete list.

• LAMP (Linux / Apache HTTP Server / MySQL / PHP)
• Nginx
• WikiMedia — the web app running this site.
• Django
• WordPress (+bbPress; see: my personal blog.)
• Drupal (see: my personal drupal page. Note that I also develop modules for Drupal)
• phpBB (+MODs, SEOs, and Fetch All) (see: my personal phpBB forum. Note that this is a private forum not open to the public.)
• Smarty
• Coppermine Photo Gallery

Software (*nix)

 see: Category:Bioinformatics and Category:Crystallography for more.

• Previous developer / programmer / maintainer of: Pymmlib, TLSMD, Raster3D
• Wireshark
• ImageMagick
• BLAST (standalone and webserver)
• Clustal
• CCP4 (contributor)
• EMBOSS
• MrBayes
• CHARMM
• DOT
• GnuPlot (+C API), Grace / xmgrace
• RasMol, Jmol, PyMOL (+scripting)
• matplotlib
• Sage (System for Algebra and Geometry Experimentation)
• GIMP (+various image generating techniques)
• OpenOffice / LibreOffice
• vi/vim (used for pretty much everything I do)
• Etc, etc. (Linux has been my primary OS for work and home use since 1999)