Shaun Jackman sjackman

## web-servers.md

      
              1 file
            
          
              934 forks
            
          
              236 comments
            
          
              5942 stars
            
          
                willurd
                / web-servers.md
            
            
              Last active
              May 4, 2024 07:22
            
              
                Big list of http static server one-liners
              
          
    Each of these commands will run an ad hoc http static server in your current (or specified) directory, available at http://localhost:8000. Use this power wisely.
Discussion on reddit.
Python 2.x

$ python -m SimpleHTTPServer 8000

  
## qemu_osx_rpi_raspbian_jessie.sh
# Install QEMU OSX port with ARM support
sudo port install qemu +target_arm
export QEMU=$(which qemu-system-arm)

# Dowload kernel and export location
curl -OL \
https://github.com/dhruvvyas90/qemu-rpi-kernel/blob/master/kernel-qemu-4.1.7-jessie
export RPI_KERNEL=./kernel-qemu-4.1.7-jessie

# Download filesystem and export location

## gist:1155906

      
              1 file
            
          
              46 forks
            
          
              69 comments
            
          
              355 stars
            
          
                clintel
                / gist:1155906
            
            
              Created
              August 19, 2011 02:40
            
              
                Fenced code in bullet lists with GitHub-flavoured MarkDown??
              
          
    Fenced code blocks inside ordered and unordered lists


This is a numbered list.


I'm going to include a fenced code block as part of this bullet:
Code
More Code


## README.md

      
              2 files
            
          
              77 forks
            
          
              182 comments
            
          
              397 stars
            
          
                fnichol
                / README.md
            
            
              Created
              March 12, 2011 20:52
            
              
                Download a cacert.pem for RailsInstaller
              
          
    Why?

There is a long standing issue in Ruby where the net/http library by default does not check the validity of an SSL certificate during a TLS handshake. Rather than deal with the underlying problem (a missing certificate authority, a self-signed certificate, etc.) one tends to see bad hacks everywhere. This can lead to problems down the road.
From what I can see the OpenSSL library that Rails Installer delivers has no certificate authorities defined. So, let's go fetch some from the curl website. And since this is for ruby, why don't we download and install the file with a ruby script?
Installation

The Ruby Way! (Fun)


## ds-training.md

      
              1 file
            
          
              23 forks
            
          
              11 comments
            
          
              117 stars
            
          
                hadley
                / ds-training.md
            
            
              Created
              March 13, 2015 18:49
            
              
                My advise on what you need to do to become a data scientist...
              
          
If you were to give recommendations to your "little brother/sister" on things
that they need to do to become a data scientist, what would those things be?

I think the "Data Science Venn Diagram" (http://drewconway.com/zia/2013/3/26/the-data-science-venn-diagram) is a great place to start. You need three things to be a good data scientist:

Statistical knowledge
Programming/hacking skills
Domain expertise

Statistical knowledge


## genbank_to_tbl.py
# requires biopython
# run like:
#   genbank_to_tbl.py "my organism name" "my strain ID" "ncbi project id" < my_sequence.gbk
#   writes seq.fsa, seq.tbl as output

import sys
from copy import copy
from Bio import SeqIO

def find_gene_entry(features, locus_tag):

## ipython-0.0.1.py
#!/usr/bin/env python
"""
Interactive execution with automatic history, tries to mimic Mathematica's
prompt system. This environment's main features are:

- Numbered prompts (In/Out) similar to Mathematica. Only actions that produce
  output (NOT assingments, for example) affect the counter and cache.

- The following GLOBAL variables always exist (so don't overwrite them!):
  _p: stores previous result which generated printable output.

## 2014-10-12_stop-working-directory-insanity.md

      
              1 file
            
          
              9 forks
            
          
              6 comments
            
          
              70 stars
            
          
                jennybc
                / 2014-10-12_stop-working-directory-insanity.md
            
            
              Last active
              September 23, 2022 04:43
            
              
                Stop the working directory insanity
              
          
    There are packages for this now!

2017-08-03: Since I wrote this in 2014, the universe, specifically Kirill Müller (https://github.com/krlmlr), has provided better solutions to this problem. I now recommend that you use one of these two packages:

rprojroot: This is the main package with functions to help you express paths in a way that will "just work" when developing interactively in an RStudio Project and when you render your file.
here: A lightweight wrapper around rprojroot that anticipates the most likely scenario: you want to write paths relative to the top-level directory, defined as an RStudio project or Git repo. TRY THIS FIRST.

I love these packages so much I wrote an ode to here.
I use these packages now instead of what I describe below. I'll leave this gist up for historical interest. 😆

  
## install-gcc48-linuxbrew-centos6.md

      
              1 file
            
          
              37 forks
            
          
              25 comments
            
          
              127 stars
            
          
                stephenturner
                / install-gcc48-linuxbrew-centos6.md
            
            
              Last active
              March 6, 2022 02:49
            
              
                Installing gcc 4.8 and Linuxbrew on CentOS 6
              
          
    Installing gcc 4.8 and Linuxbrew on CentOS 6

The GCC distributed with CentOS 6 is 4.4.7, which is pretty outdated. I'd like to use gcc 4.8+. Also, when trying to install Linuxbrew you run into a dependency loop where Homebrew's gcc depends on zlib, which depends on gcc. Here's how I solved the problem.
Note: Requires sudo privileges.
Resources:


http://superuser.com/a/676337/88393: Forum response on using CERN's open Scientific Linux distribution of RHEL's developer toolset.
http://linux.web.cern.ch/linux/devtoolset/: CERN's developer toolset installation instructions.


## slide.html
<!doctype html>
<html lang="en">
  <head>
    <meta charset="utf-8">

    <title>
      {% if page.title %}
        {{ page.title }} | {{ site.title }}
      {% else %}
        {{ site.title }}
	# Install QEMU OSX port with ARM support
	sudo port install qemu +target_arm
	export QEMU=$(which qemu-system-arm)

	# Dowload kernel and export location
	curl -OL \
	https://github.com/dhruvvyas90/qemu-rpi-kernel/blob/master/kernel-qemu-4.1.7-jessie
	export RPI_KERNEL=./kernel-qemu-4.1.7-jessie

	# Download filesystem and export location
	# requires biopython
	# run like:
	# genbank_to_tbl.py "my organism name" "my strain ID" "ncbi project id" < my_sequence.gbk
	# writes seq.fsa, seq.tbl as output

	import sys
	from copy import copy
	from Bio import SeqIO

	def find_gene_entry(features, locus_tag):
	#!/usr/bin/env python
	"""
	Interactive execution with automatic history, tries to mimic Mathematica's
	prompt system. This environment's main features are:

	- Numbered prompts (In/Out) similar to Mathematica. Only actions that produce
	output (NOT assingments, for example) affect the counter and cache.

	- The following GLOBAL variables always exist (so don't overwrite them!):
	_p: stores previous result which generated printable output.
	<!doctype html>
	<html lang="en">
	<head>
	<meta charset="utf-8">

	<title>
	{% if page.title %}
	{{ page.title }} \| {{ site.title }}
	{% else %}
	{{ site.title }}