Josh Cook jhrcook

Git Large File Storage

A repository can use git large file storage ("git-lfs") to manage large data files.

Installation

The instructions on installing git-lfs for Mac, Windows, and some linux distros are available on the git-lfs GitHub repo Wiki. Since I did this work remotely on the HMS Research Computing Cluster, I do not have root access and had to install from source.

Download the source code of the latest release from here.

Commands to get permission to push to GitHub on O2.

eval "$(ssh-agent -s)"
ssh-add ~/.ssh/id_rsa_github

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Code

Here is how you can link to [a post]({{< ref "/post/some_post.md" >}}) in Academic Kickstarter for Hugo.


	You can insert a code chunk within a code chunk in Rmarkdown as shown here. This code chunk was used in my bookdown book "Package as Analysis" to show a SublimeText3 snippet that itself inserts a code chunk

	````html
	<snippet>
	<content><![CDATA[
	`r ''````{r ${1:chunk_name}}
	$0
	```
	]]></content>

	# load libraries individually
	library(purrr)
	library(magrittr)
	library(tidyr)
	library(dplyr)

	# or just load
	library(tidyverse)

	# some random data to make my own data frame with

	for (letter in letters) {
	cat(letter)
	# do some work
	Sys.sleep(0.1)
	cat("\33[2K\r")
	}
	cat("done\n")

	# A function factory for getting integer y-axis values.
	integer_breaks <- function(n = 5, ...) {
	fxn <- function(x) {
	breaks <- floor(pretty(x, n, ...))
	names(breaks) <- attr(breaks, "labels")
	breaks
	}
	return(fxn)
	}

-# An empty directory.
-mkdir empty-dir
-# A directory with files to delete.
-mkdir bar
-touch bar/someFile.txt
-# Delete files in "bar/"
-rsync -a --delete empty-dir/ bar/