Added several chemistry packages; added chemistry chapter

.gitignore

@@ -1,2 +1,14 @@
 Covers
 *bklt*
+*.aux
+*.log
+*.out
+*.synctex.gz
+*.toc
+*.dvi
+*.odt
+metric*
+*.mx1
+*.abc
+*.bak
+*wc*

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@@ -860,7 +860,7 @@ Chapter 1.
 [5
 
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 \OT1/jkp/m/n/10 be-cause they had a go-back-through-all-your-steps-to-see-where
 -you-done-
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 \OT1/jkp/m/n/10 1921 by Theodore and Mil-ton
  []
 
@@ -889,13 +889,13 @@ Chapter 2.
 ] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22]
 Chapter 3.
 
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 [24] [25] [26] [27] [28]
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  []
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 Chapter 5.
 
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001/codex-001.tex

@@ -51,7 +51,8 @@
 \usepackage{wrapfig}
 
 % Do we want to include URLs?
-\usepackage{hyperref}
+% Yes, but we also want to hide the big red box it puts around them. Thanks /u/0b0101011001001011
+\usepackage[hidelinks]{hyperref}
 
 % Use tab stops when we need to (especially in footnotes)
 \usepackage{tabto}
@@ -253,11 +254,11 @@ The command line, in short, makes you think. It makes you plan, it makes you thi
 
 A GUI only makes you think about the next step. Surely all the steps after that will be obvious, \textit{n'est ce pas}? I've seen a lot of people ask questions online where they just want to be told which button to push. They are asking about how to cross the street when what they really want to do is get across town. They are asking for \textit{information} when what they really need is \textit{knowledge}.
 
-Sadly, as individuals and as a society, we are drowning in \textit{information} when what we are starving for \textit{knowledge}.
+Sadly, as individuals and as a society, we are drowning in \textit{information} when what we are starving for is \textit{knowledge}.
 
 \section{The Unix Philosophy}
 
-The Unix Philosophy was originated by Ken Thompson (one of the creators of Unix, upon which Linux is based) and basically says that each program should do one thing and do it well. (There is more to it than this; if you are interested, you can always google it.\footnote{Searching for something on the internet is \textit{always} an option these days, and so many people seem to be unable to do just that. Honestly, this is the kind of stuff that gets my underpants in a twist. \\ \tabto{1.9em}Question: ``Where can I find \textit{X}?'' Answer: The same place I would find it: At the other end of a google search. \\ \tabto{1.9em}Better question: ``Which is the \textbf{best} source for \textit{X}? Ah, \textit{now} we have the basis for a discussion. I'll put the kettle on and we can talk about it.})
+The Unix Philosophy was originated by Ken Thompson (one of the creators of Unix, upon which Linux is based) and basically says that each program should do one thing and do it well. (There is more to it than this; if you are interested, you can always google it.\footnote{Searching for something on the internet is \textit{always} an option these days, and so many people seem to be unable to do just that. Honestly, this is the kind of stuff that gets my underpants in a twist. \\ \tabto{1.9em}Question: ``Where can I find \textit{X}?'' Answer: The same place I would find it: At the other end of a google search. \\ \tabto{1.9em}Better question: ``Which is the \textbf{best} source for \textit{X}?'' Ah, \textit{now} we have the basis for a discussion. I'll put the kettle on and we can talk about it.})
 
 This runs counter to physical life, where everything has to be a Swiss army watch. Watch any ad for a new kitchen gadget and this device does \textit{everything} except walk the dog and take out the trash. If it \textit{actually} did all those things and did them well, I would be happy to own one and more than happy to pay a couple of hundred dollars for it.
 
@@ -385,7 +386,7 @@ These are violations of the Unix Principle that actually work well and that I ca
 
 \bigskip
 
-\noindent Well, I've rambled a bit here. I'm sure I'll remember more things to like about Unix after I put this issue to bed. And I'll do a bit of research, as well. But one of my favorite reasons is this:
+\noindent Well, I've rambled a bit here. I'm sure I'll remember more things to like about Linux after I put this issue to bed. And I'll do a bit of research, as well. But one of my favorite reasons is this:
 
 \begin{verbatim}
 $ cowsay "Linux Rocks"
@@ -539,7 +540,7 @@ I suppose I should have been an archivist. I am always trying to preserve the wr
 
 And this makes sense. It's easier to share a digital file of something than to share the thing itself, because as my experience with sharing books highlights, you rarely get them back. Also, the further you spread something, the more like it is to be preserved. \textit{Preservation through dissemination.}
 
-So I scan a lot of things. Because this can be a messy, complicated process, I've developed workflows around this. (I am big into workflows, because once you have one down, it's easier to anticipate and deal with interruptions or disruptions, unless you run into a mule.\footnote{If you've read Asimov's \textit{Foundation} series, you'll recognize that reference.} So here is my workflow for scanning things.
+So I scan a lot of things. Because this can be a messy, complicated process, I've developed workflows around this. (I am big into workflows, because once you have one down, it's easier to anticipate and deal with interruptions or disruptions, unless you run into a mule.\footnote{If you've read Asimov's \textit{Foundation} series, you'll recognize that reference.}) So here is my workflow for scanning things.
 
 My hardware is a Brother MFC-J805DW printer/scanner/fax machine.\footnote{One day, we will eventually give up faxing, which is archaic at this point. I don't know if we'll just start calling these machines ``printer/scanners'' or if we'll continue to call them ``multi-function machines'' because they still can make copies. Futurists tend not to care about the details. (In reality, these will all be obsolete in the new digital order, when the oceans have risen and all the paper underwater has decomposed. I'm not a futurist, so I'm interested in the details.)} And this is where we run into problems, because while Brother does make Linux drivers for this machine, the printer driver works great and the scanner driver does not. If I install it, it works fine for three or four scans and then it starts to hang. I can uninstall it, reinstall it, and get a few more good scans out of it before everything goes pear-shaped again. I could live with this if I only did the occasional scan, but I scan on a regular basis.
 
@@ -626,7 +627,7 @@ The word ``hacker'' has a lot of definitions, and if you google it, you'll find
 
 (And yes, there are bad people out there who use their advanced technical knowledge to attain access to systems that they shouldn't have in order to obtain information they're not supposed to have. I'm not talking about those people, who technically should be called ``crackers,'' rather than ``hackers,'' a l\'{a} ``safe crackers''.)
 
-Rather, I'm talking about the older meaning of the term ``hacker'' which is somebody who enjoys the intellectual challenge of pushing software (and often hardware) beyond what it is meant to do in order to achieve interesting and clever outcomes. In order to do so, of course, they have to know the systems they are working with fairly well. In fact, the definition of ``hack'' that I like best is ``an appropriate application of ingenuity.''\footnote{See \href{http://www.catb.org/~esr/jargon/html/meaning-of-hack.html}{\texttt{http://www.catb.org/~esr/jargon/html/meaning-of-hack.html}}.}
+Rather, I'm talking about the older meaning of the term ``hacker'' which is somebody who enjoys the intellectual challenge of pushing software (and often hardware) beyond what it is meant to do in order to achieve interesting and clever outcomes. In order to do so, of course, they have to know the systems they are working with fairly well. In fact, the definition of ``hack'' that I like best is ``an appropriate application of ingenuity.''\footnote{See \href{http://www.catb.org/~esr/jargon/html/meaning-of-hack.html}{\texttt{http://www.catb.org/\textasciitilde esr/jargon/html/meaning-of-hack.html}}.}
 
 Of course, this term originally referred to computer technology, but now I'm finding that people are using it everywhere, even in places where it doesn't belong. (I'm looking at you, the writers and editors of apparently every food magazine and website ever.)
 

002/build/codex-002.aux

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002/build/codex-002.out

@@ -1 +0,0 @@
-\BOOKMARK [0][-]{chapter.1}{The Early Salad Days, continued}{}% 1

002/build/codex-002.toc

@@ -1 +0,0 @@
-\contentsline {chapter}{\numberline {1}The Early Salad Days, continued}{4}{chapter.1}%

002/codex-002.tex

@@ -1,12 +1,12 @@
 \documentclass[twoside]{report}
 \usepackage[utf8]{inputenc}
 \usepackage{amsmath}
-%\usepackage{amsfonts}
 \usepackage{amssymb}
 \usepackage{makeidx}
 %\makeindex
 \usepackage{graphicx}
 \usepackage{kpfonts}
+\usepackage{float}
 \raggedbottom
 
 % Where are our images?
@@ -24,8 +24,8 @@
 
 % Adjust the top and bottom margins
 % http://kb.mit.edu/confluence/pages/viewpage.action?pageId=3907057
-\addtolength{\topmargin}{0.5in}
-\addtolength{\textheight}{-1in}
+\addtolength{\topmargin}{0.4in}
+\addtolength{\textheight}{-0.75in}
 
 % Set the header style
 % https://www.overleaf.com/learn/latex/Headers_and_footers
@@ -48,10 +48,12 @@
 \counterwithout{footnote}{chapter}
 
 % Let's wrap some images
+% https://en.wikibooks.org/wiki/LaTeX/Floats,_Figures_and_Captions
 \usepackage{wrapfig}
 
 % Do we want to include URLs?
-\usepackage{hyperref}
+% Yes, but we also want to hide the big red box it puts around them in the pdf. Thanks /u/0b0101011001001011
+\usepackage[hidelinks]{hyperref}
 
 % Use tab stops when we need to (especially in footnotes)
 \usepackage{tabto}
@@ -61,6 +63,35 @@
 % Use strikethrough
 \usepackage{ulem}
 
+% Style a blockquote
+% 2021.11.22 -- Not really sure I need this anymore. 
+% See https://tex.stackexchange.com/questions/325695/how-to-style-blockquote
+% \usepackage{etoolbox}
+% \usepackage{setspace} % for \onehalfspacing and \singlespacing macros
+% See also https://www.overleaf.com/learn/latex/Typesetting_quotations
+
+% Make things neater. Thanks /u/-LeopardShark-
+\usepackage{microtype}
+
+% Put a horizontal rule in an align environment
+% This is just for the page numbers/scanning picture
+\usepackage{booktabs}
+
+% Use line numbers with code samples
+% \begin{Verbatim}...\end{Verbatim} <-- Note the capitalization!
+\usepackage{fancyvrb}
+
+\raggedbottom
+
+% Pictures!
+\usepackage{tikz}
+
+% Cancel units in math mode!
+\usepackage{cancel}
+
+% Use nice fractions
+\usepackage{nicefrac}
+
 \author{Kenneth John Odle}
 \title{
  {\Huge the codex} \\
@@ -69,28 +100,847 @@
  Typeset in \LaTeX{} \\
  Issue \#002}
 }
-\date{\begin{small}2021.10.01\end{small}}
+\date{\begin{small}\today{}\end{small}}
 
 \begin{document}
 \maketitle
 
 \section*{Impressum}
-All contents  \copyright2021 Kenneth John Odle
+All contents  \copyright2022 Kenneth John Odle
 
-Although this is now in your hands, and it's also on the web, so if you really wanted to steal this, I've made it pretty darn easy. I can't imagine why anyone would want to, though. You don't need to, however, since this is licenced under a CC BY-NA-SA 4.0 Creative Commons license. More information is at \href{https://creativecommons.org/licenses/by-nc-sa/4.0/}{https://creativecommons.org/licenses/by-nc-sa/4.0/}. \includegraphics[scale=0.35]{ncsa4-0}
+Although this is now in your hands, and it's also on the web, so if you really wanted to steal this, I've made it pretty darn easy. I can't imagine why anyone would want to, though. However, you don't need to, because this is licenced under a CC BY-NA-SA 4.0 Creative Commons license. More information is at \href{https://creativecommons.org/licenses/by-nc-sa/4.0/}{\texttt{https://creativecommons.org/licenses/by-nc-sa/4.0/}} \includegraphics[scale=0.35]{ncsa4-0}
 
-FYI, this is made in \LaTeX \,using the report document class. It then gets exported to a letterhalf (5.5 in x 8.5 in) pdf, which then gets made into a booklet using PDF Booklet (\href{https://pdfbooklet.sourceforge.io/wordpress/}{\texttt{https://pdfbooklet.sourceforge.io/wordpress/}}).
+FYI, this is made in \LaTeX \,using the report document class. It then gets exported to a letterhalf (5.5 in x 8.5 in) pdf, which then gets made into a booklet using PDF Booklet (\href{https://pdfbooklet.sourceforge.io/wordpress/}{\texttt{https://pdfbooklet.sourceforge.io/wordp \\ ress/}}).
 
 I'm pushing this to my own git server as I write this. You can find it \href{https://git.kjodle.net/kjodle/the-codex}{here}: \texttt{https://git.kjodle.net/kjodle/the-codex}. New issues will be pushed after they are complete.
 
+You can just skip over all the diversions in here if you want. It's just how my mind works. (And yes, there will be politics in this. \textit{You have been warned.}) Also, I use a lot of em-dashes, parentheses, and footnotes because that is also how my mind works. It's just one big long stream of consciousness up in here most days.
+
+The buttons are from the Button Optimizer website, which is here: \href{https://buttonoptimizer.com/}{\texttt{https://buttonoptimizer.com/}}. I'm not sure if I like this concept or not. We'll have to see. (Note from the future: turns out I'm not keen.)
 
-You can just skip over all the diversions in you want. It's just how my mind works. (And yes, there will be politics in this. \textit{You have been warned.}) Also, I use a lot of em-dashes, parentheses, and footnotes because that is also how my mind works. It's just one big long stream of consciousness up in here most days.
+\medskip
+
+\noindent \textbf{Errata:} To err is human, to document those errors is divine. A list of errata can be found at \href{https://git.kjodle.net/kjodle/the-codex/wiki/Errata}{\texttt{https://git.kjodle.net/kjodle/the-codex/wiki/Err \\ ata}}.
+
+\medskip
+
+\noindent \textbf{Credit where credit is due:} A lot of people have come forth (mostly from Reddit) to help me out in various ways. See the preamble to this document in the source code to see them. One aspect of our society is that nobody \textit{has} to help you. It is wonderful when it happens, and I am grateful for their help.
+
+The pictures of a Commodore 64 is courtesy of Bill Bertram. It was published at \href{https://commons.wikimedia.org/wiki/File:Commodore64.png}{\texttt{https://commons.wikimedia.org/wiki/File:Commodore64.pn\\g}} where you can also find the Creative Commons 2.5 license it was licensed under. I did slightly crop the top and bottom to make it fit better. LaTeX didn't care. The picture of a Commodore 128 is courtesy of Evan-Amos, and was published at \href{https://commons.wikimedia.org/wiki/File:Commodore-128.jpg}{\texttt{https://commons.wikimedia.org/wiki/File:Commodo\\re-128.jpg}}, where you can find the Creative Commons 3.0 license it was licensed under.
 
 \tableofcontents
 
-\chapter{The Early Salad Days, continued}
+\chapter{The Later Salad Days}
 Boring, early life stuff when my world smelled like sweat and disinfectant and room temperature bologna. Feel free to skip this. I wish I could.
 
+\section{The Joy of Commodore 64}
+
+The first computer I ever owned (and thus could use whenever I wanted to, provided it did not annoy the adults in the house) was a Commodore-64. (And yes, my use of this machine seemed to bug adults no end, and I have no idea why. I guess the same adults who thought it was a waste of time playing video games simply thought that a computer is another, more expensive type of video game. The lesson I learned here is to try to get some knowledge before you jump to criticism.) 
+
+The ``64'' stood for 64 kilobytes, which was the amount of memory it had. If you've never heard of a kilobyte before, and are wondering how many gigabytes that is, it's time for some math, and also introductory computer science.
+
+Hold on. You've never heard of a \textit{kilobyte}? Wow, either we've really moved along, or I'm old, or both. Probably both. My knees hurt in the morning. Yeah, probably both.
+
+Computers are just a series of switches. Each switch is a \textit{bit}. Eight bits make up a \textit{byte}, which is enough memory to remember a single character.\footnote{ See \href{https://web.stanford.edu/class/cs101/bits-bytes.html}{\texttt{https://web.stanford.edu/class/cs101/bits-bytes.html}} for more information.} Since each bit is just a one or a zero, there are 256 possible different characters you can record in a byte. (Mathematically, it works out to $ 2^n $ possible combinations. Since in this case $n=8$, then we have $2^8=256$ different combinations of ones and zeroes.\footnote{ To see the actual combinations, visit \href{https://user.eng.umd.edu/~nsw/chbe250/number.htm}{\texttt{https://user.eng.umd.edu/$\sim$nsw/chbe250/numbe \\ r.htm}}, and to see which characters those numbers translate to, see \href{https://www.rapidtables.com/code/text/ascii-table.html}{\texttt{https://www.rapidtables \\ .com/code/text/ascii-table.html}}.})
+
+Time for some math, which looks like this:
+
+\begin{scriptsize}
+\begin{tabular}{r c c c c c l}
+ & & & & & 1~byte &= 8~bits \\
+ & & & 1 kb &=& 1,024 bytes &= 8,192 bits \\
+ & 1 MB &=& 1,024 kb &=& 1,048,576 bytes &= 8,388,608 bits \\
+ 1 GB =& 1,024 MB &=& 1,048,576 kb &=& 1,073,741,824 bytes &= 8,589,934,592 bits
+\end{tabular}
+\end{scriptsize}
+
+\bigskip
+
+If you don't trust my math, check out \href{https://www.matisse.net/bitcalc/}{\texttt{https://www.matisse.net/bit \\ calc/}}, which is where I did this math. It's actually kind of fun, and they get bonus points for including the source code of the perl script behind this sorcery.
+
+Anyway, I'm driving a laptop now that has 8 GB of memory in it. (And I've seriously considered upgrading it to 16 GB). A gigabyte is equal to 1,048,576 kilobytes. The math (and heck, let's use dimensional analysis because it's fun) looks like this:
+
+\[
+8\text{ \cancel{GB}} \times \frac{1,048,576 \text{ \cancel{kb}}}{1 \text{ \cancel{GB}}} \times \frac{1 \text{ Commodore 64}}{64 \text{ \cancel{kb}}} = 16,384 \text{ Commodore 64's}
+\]
+
+So the computer I'm on now has as much memory as 16,384 of the computer I had when I was 13 years old. If that doesn't seem like a lot to you, I paid \$175 for my current computer (used) in 2016, and paid \$200 (new) for a Commodore 64 in 1981. That's \$3,276,800 in 1981 dollars, which is the equivalent of \$8,651,869.50 in 2016 dollars, respectively. I didn't have three million dollars when I was thirteen, and I certainly don't have over eight million dollars now. Sadly.\footnote{Check out \href{https://www.in2013dollars.com/us/inflation/1981}{\texttt{https://www.in2013dollars.com/us/inflation/1981}} for the actual numbers.}
+
+\medskip
+
+\hrule
+
+\medskip
+
+\textbf{Oh look, it's a diversion}
+
+\begin{multicols}{2}
+If you've studied the metric system, you know that \textit{kilo-} is a prefix that means a ``a thousand'' and \textit{mega-} is a prefix that means ``a million.''
+
+Hold on. (Again.)
+
+1,024 is \textit{not} a thousand, and 1,048,576 is \textit{not} a million. For my entire life, we've just walked right past this and pretended that we didn't notice. Doing science stuff? \textit{kilo} is a 1,000 and \textit{mega} is a million. Doing computer stuff? Then \textit{kilo} means 1,000\textit{ish} and \textit{mega} means a million\textit{ish}. Move along now, nothing to see here.
+
+That discrepancy should bug you. It bugs me, but I also have bills to pay, so when someone asks ``\textit{how much} does it bug you?'' my honest answer is that I've worked \textit{very} hard to not let it bug me all that much.
+
+But still.
+
+Fortunately, it also bugged the International Electrotechnical Commission (an international standards commission whose job it is to standardize things) enough so that they introduced a few new terms in 1998.\footnote{The standard is ISO/IEC 80000, section 13. This standard is all about the International System of Quantities, and if you're into that sort of thing, it is utterly \textit{fascinating} reading. I'm not being facetious here---humans measure \textit{everything}, and this document describes how we do it.} \textbf{Kibibyte} means \textit{exactly} 1,024 bytes, and not one byte more, not one byte less. \textbf{Mebibyte} is exactly 1,048,576 bytes. And so on with gibibytes, tebibytes, and pebibytes. They are all some form of $2^n$, which means they \textit{accurately} describe just how many bytes we're talking about here.
+
+The following table is filled with much beauty:
+
+\vspace{-12pt}
+
+\begin{small}
+\begin{align*}
+ 1~kibibyte~(ki) &= 1,024~bytes \\
+ 1~mebibyte~(Mi) &= 1,024^2~bytes \\
+ 1~gibibyte~(Gi) &= 1,024^3~bytes \\
+ 1~tebibyte~(Ti) &= 1,024^4~bytes \\
+ 1~pebibyte~(Pi) &= 1,024^5~bytes \\
+\end{align*}
+\end{small}
+
+\vspace{-12pt}
+
+I can at last sleep soundly.
+\end{multicols}
+
+\medskip
+
+\hrule
+