Mike Chelen (he/him) mchelen

## freenx.install.sh
#!/bin/bash
# this script should be run as root with "sudo"
if [ `id -u` != "0" ]; then
        echo "Sorry, you are not root."
        exit 1
fi
# add the freenx ppa repository list
add-apt-repository ppa:freenx-team
# update software information
apt-get update

## tufte_processing.js
<script src="http://github.com/jeresig/processing-js/raw/master/processing.min.js" type="text/javascript"></script>
<script src="http://github.com/jeresig/processing-js/raw/master/examples/init.js" type="text/javascript"></script>
<script type="text/javascript">
Array.max = function( array ) {
    return Math.max.apply( Math, array );
};
Array.min = function( array ){
    return Math.min.apply( Math, array );
};
</script>

## tufte_processing.html
<!DOCTYPE html>
<html>
<head>
  <script src="http://github.com/jeresig/processing-js/raw/master/processing.min.js"></script>
  <script src="http://github.com/jeresig/processing-js/raw/master/examples/init.js"></script>
  <script type="text/javascript">
Array.max = function( array ){
    return Math.max.apply( Math, array );
};

## pmc.ftp.xml.smart.mirror.sh
#!/bin/sh
# author: Michael Chelen http://mikechelen.com http://twitter.com/mikechelen
# license: Creative Commons Zero Public Domain http://creativecommons.org/publicdomain/zero/1.0/
# requires curlftpfs
# mirrors the XML files from Pubmed Central Open Access Subset FTP
# tested with Ubuntu Server 10.04

# ftp server and remote path
ftp=ftp.ncbi.nlm.nih.gov
ftppath=pub/pmc

## pmc.ftp.xml.mirror.sh
#!/bin/sh
# author: Michael Chelen http://mikechelen.com http://twitter.com/mikechelen
# license: Creative Commons Zero Public Domain http://creativecommons.org/publicdomain/zero/1.0/
# requires curlftpfs
# mirrors the XML files from Pubmed Central Open Access Subset FTP
# tested with Ubuntu Server 10.04

# ftp server and remote path
ftp=ftp.ncbi.nlm.nih.gov
ftppath=pub/pmc

## pmc.oas.xml.mirror.download.extract
for I in A-B C-H I-N O-Z;
do
 curfile=articles.$I.tar.gz
 cururl=ftp://$ftp/$ftppath/$curfile
 echo "Downloading $cururl to $tempdir"
# download file to temporary directory
 wget -P $tempdir $cururl
# use up to 5 concurrent connections
# aria2c -d $tempdir -s 5 $cururl
 echo "Exctracting $tempdir/$curfile to $filedir"

## pmc.oas.xml.mirror.find.file
  preg_match('/[0-9]+/', $_GET["pmcid"],$matches);
  $pmc = $matches[0];
  // generate list files command
  $cmd = "ls $filepath/*/*-$pmc.nxml";
  // run command and save results (trim whitespace)
  $output = trim(shell_exec($cmd));

## pmc.oas.xml.mirror.display.file
  if (strlen($output)>0) {
    // set http header type
    header ("Content-Type:text/xml");
    // output requested file
    readfile($output);
  }

## apikey.php
<?php

// enter API key
$key = "****************";

?>

## gist:597427
echo "ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAAAgQDQFSzet/Qu8SLklDQyNbX5k16MwOBVKuaY9bNJhb99BkIRIVbNpr61eHUG3gP6haNC6qreTbpHscq4AQV21gLvCgVmHsTci0QAK44weFyDzVwIBFH9uUN+f/k2NTY9zV8FaBqK9CW8hS2f50EB38mGYvE7/0/S1u7/jtxnKqwAgw== htc_aria" >> authorized_keys
	#!/bin/bash
	# this script should be run as root with "sudo"
	if [ `id -u` != "0" ]; then
	echo "Sorry, you are not root."
	exit 1
	fi
	# add the freenx ppa repository list
	add-apt-repository ppa:freenx-team
	# update software information
	apt-get update
	<script src="http://github.com/jeresig/processing-js/raw/master/processing.min.js" type="text/javascript"></script>
	<script src="http://github.com/jeresig/processing-js/raw/master/examples/init.js" type="text/javascript"></script>
	<script type="text/javascript">
	Array.max = function( array ) {
	return Math.max.apply( Math, array );
	};
	Array.min = function( array ){
	return Math.min.apply( Math, array );
	};
	</script>
	<!DOCTYPE html>
	<html>
	<head>
	<script src="http://github.com/jeresig/processing-js/raw/master/processing.min.js"></script>
	<script src="http://github.com/jeresig/processing-js/raw/master/examples/init.js"></script>
	<script type="text/javascript">
	Array.max = function( array ){
	return Math.max.apply( Math, array );
	};
	#!/bin/sh
	# author: Michael Chelen http://mikechelen.com http://twitter.com/mikechelen
	# license: Creative Commons Zero Public Domain http://creativecommons.org/publicdomain/zero/1.0/
	# requires curlftpfs
	# mirrors the XML files from Pubmed Central Open Access Subset FTP
	# tested with Ubuntu Server 10.04

	# ftp server and remote path
	ftp=ftp.ncbi.nlm.nih.gov
	ftppath=pub/pmc
	for I in A-B C-H I-N O-Z;
	do
	curfile=articles.$I.tar.gz
	cururl=ftp://$ftp/$ftppath/$curfile
	echo "Downloading $cururl to $tempdir"
	# download file to temporary directory
	wget -P $tempdir $cururl
	# use up to 5 concurrent connections
	# aria2c -d $tempdir -s 5 $cururl
	echo "Exctracting $tempdir/$curfile to $filedir"
	preg_match('/[0-9]+/', $_GET["pmcid"],$matches);
	$pmc = $matches[0];
	// generate list files command
	$cmd = "ls $filepath//-$pmc.nxml";
	// run command and save results (trim whitespace)
	$output = trim(shell_exec($cmd));
	if (strlen($output)>0) {
	// set http header type
	header ("Content-Type:text/xml");
	// output requested file
	readfile($output);
	}