naupaka

List of microbial ecology talks at the 2014 ESA meeting in Sacramento 
Feel free to add your favorite talks

Workshops of Interest
|   Day    |      Time     |              Session                                       |  Organizer                 |
|----------|---------------|------------------------------------------------------------|----------------------------|
|Sunday    |      8-5      | Env Seq Approaches and Comp Tools for Ecologists           |  Holly Bik                 |
|Monday    |   11:30-1:15  | Viz w/ Radioisotopes for Plant/Microbe Metabolite Transfer |  Chantal D. Reid           |

Sessions of Interest

naupaka

/*
Chirp - arduino example

Connection 
Chirp pin 1 - no connection
Chirp pin 2 - Arduino VCC
Chirp pin 3 - Arduino A5
Chirp pin 4 - Arduino A4
Chirp pin 5 - Arduino pin 2
Chirp pin 6 - Arduino GND

naupaka

# WMF only:
if (file.exists("/etc/wikimedia-cluster")) {
  message('Detected that this script is being run on a WMF machine ("', Sys.info()["nodename"], '"). Setting proxies...')
  Sys.setenv("http_proxy" = "http://webproxy.eqiad.wmnet:8080")
  Sys.setenv("https_proxy" = "http://webproxy.eqiad.wmnet:8080")
}

# General use:
message("Checking for a personal library...")
if (!dir.exists(Sys.getenv("R_LIBS_USER"))) {

naupaka

#! /usr/bin/env python

""" Convert values between RGB hex codes and xterm-256 color codes.

Nice long listing of all 256 colors and their codes. Useful for
developing console color themes, or even script output schemes.

Resources:
* http://en.wikipedia.org/wiki/8-bit_color
* http://en.wikipedia.org/wiki/ANSI_escape_code

naupaka

library(rtweet) #rtweet API creds should already be set up
library(stringi)
library(dplyr)

friends = get_friends(user="noamross")
followers = get_followers("noamross")
tweeps_id = distinct(bind_rows(friends, followers))
tweeps_info = lookup_users(tweeps_id$user_id)

# A regex for a visit to Durham

naupaka

naupaka

Pull Request Etiquette

Why do we use a Pull Request workflow?

PRs are a great way of sharing information, and can help us be aware of the changes that are occuring in our codebase. They are also an excellent way of getting peer review on the work that we do, without the cost of working in direct pairs.

Ultimately though, the primary reason we use PRs is to encourage quality in the commits that are made to our code repositories

Done well, the commits (and their attached messages) contained within tell a story to people examining the code at a later date. If we are not careful to ensure the quality of these commits, we silently lose this ability.

naupaka

--Script to Export Bookends Notes to OPML file v1.15
--Written by Dave Glogowski (modified by iandol)
--07 August 2017
--
--This script converts Bookends references and associated notes into an OPML structured file which can then be imported into Scrivener's research folder.
--Each reference is a top level card which contains the Title, Author, Date, Type, Publisher, Abstract, and Bookends citation key
--If there are notes associated with a reference, each note creates its own subordinate note card with the Page number (if any), note header, quotes, 
--comments, and keywoards (tags).  This allows you to individually review each comment and change its status (label) within Scrivener.
--
--The script does some error checking as follows:

naupaka

#!/usr/bin/env Rscript

json_in <- file('stdin', 'r')

lat_newp <- '{"t":"RawBlock","c":["latex","\\\\newpage"]}'

doc_newp <- '{"t":"RawBlock","c":["openxml","<w:p><w:r><w:br w:type=\\"page\\"/></w:r></w:p>"]}'

ast <- paste(readLines(json_in, warn=FALSE), collapse="\n")

naupaka

#!/Users/bcdav/.rbenv/shims/ruby
# frozen_string_literal: false

Encoding.default_external = Encoding::UTF_8

# Bernardo C. D. A. Vasconcelos #
# 2022-01-06-10-02 #

# A Ruby class for Tinderbox Documents with methods to parse attributes, links and notes.
# It deals directly with the XML file and does not rely on the application's OAS interface.