6 files changed, 131 insertions, 28 deletions
diff --git a/dissertation.cls b/dissertation.cls
index ad59dae..43f1677 100644
--- a/dissertation.cls
+++ b/dissertation.cls
@@ -31,7 +31,6 @@
 \RequirePackage[utf8]{inputenc}
 \setlength\parindent{0pt}
 \setlength{\parskip}{1em}
-\RequirePackage{enumitem}
 \setlist{noitemsep, topsep=0pt, parsep=0pt, partopsep=0pt}
 \renewcommand{\familydefault}{\sfdefault}
 
@@ -39,6 +38,25 @@
 \RequirePackage{etoolbox}
 \AtBeginEnvironment{verse}{\singlespacing}
 
+\RequirePackage[shortlabels]{enumitem}
+\newenvironment{denumerate}
+  {
+  \begin{enumerate}[topsep=0pt, itemsep=-1ex, partopsep=-10ex, parsep=1ex]
+  \singlespacing
+  }
+  {
+  \end{enumerate}
+  }
+
+\newenvironment{ditemize}
+  {
+  \begin{enumerate}[label=$\rightarrow$]
+  \singlespacing
+  }
+  {
+  \end{enumerate}
+  }  
+
 % --- code environment ----------------------------------------------------------------------------
 
 % \RequirePackage{minted}
diff --git a/dissertation.pdf b/dissertation.pdf
index 3c85835..e9df137 100644
--- a/dissertation.pdf
+++ b/dissertation.pdf
diff --git a/dissertation.syg b/dissertation.syg
index a878406..e69de29 100644
--- a/dissertation.syg
+++ b/dissertation.syg
@@ -1,3 +0,0 @@
-\glossaryentry{\ensuremath {N}?\glossentry{N}|setentrycounter[]{page}\glsnumberformat}{8}
-\glossaryentry{\ensuremath {N}?\glossentry{N}|setentrycounter[]{page}\glsnumberformat}{8}
-\glossaryentry{\ensuremath {\omega }?\glossentry{omega}|setentrycounter[]{page}\glsnumberformat}{36}
diff --git a/dissertation.tex b/dissertation.tex
index dae87b2..215b039 100644
--- a/dissertation.tex
+++ b/dissertation.tex
@@ -89,39 +89,39 @@ This dissertation is approved by the following members of the Final Oral Committ
 
 % chapters ----------------------------------------------------------------------------------------
 
-\include{introduction/chapter}
+%\include{introduction/chapter}
 
 \part{Background}
-\include{spectroscopy/chapter}
-\include{materials/chapter}
+%\include{spectroscopy/chapter}
+%\include{materials/chapter}
 \include{software/chapter}
 
 \part{Development}
-\include{processing/chapter}
-\include{acquisition/chapter}
-\include{active_correction/chapter}
-\include{opa/chapter}
-\include{mixed_domain/chapter}
+%\include{processing/chapter}
+%\include{acquisition/chapter}
+%\include{active_correction/chapter}
+%\include{opa/chapter}
+%\include{mixed_domain/chapter}
 
 \part{Applications}
-\include{PbSe/chapter}
-\include{MX2/chapter}
+%\include{PbSe/chapter}
+%\include{MX2/chapter}
 % TODO: perovskites
-\include{PEDOT:PSS/chapter}
-\include{pyrite/chapter}
-\include{BiVO4/chapter}
+%\include{PEDOT:PSS/chapter}
+%\include{pyrite/chapter}
+%\include{BiVO4/chapter}
 % TODO: SPV
 
 % appendix -----------------------------------------------------------------------------------------
 
 \part{Appendix}
 \begin{appendix}
-\include{public/chapter}
+%\include{public/chapter}
 \include{procedures/chapter}
-\include{hardware/chapter}
+%\include{hardware/chapter}
 % TODO: consider inserting WrightTools documentation as PDF
-\include{errata/chapter}
-\include{colophon/chapter}
+%\include{errata/chapter}
+%\include{colophon/chapter}
 \end{appendix}
 
 % post --------------------------------------------------------------------------------------------
diff --git a/procedures/chapter.tex b/procedures/chapter.tex
index 4ac67ed..9c9bd32 100644
--- a/procedures/chapter.tex
+++ b/procedures/chapter.tex
@@ -1,5 +1,88 @@
 \chapter{Procedures}
 
+\section{Calibrating the 407A}
+
+Calibrating the 407A
+
+You may sometimes notice that the zero position changes dramatically from sensitivity to
+sensitivity with the 407A. If this happens, iterate through the following until zero stays
+consistent:
+
+Use the fine adjust (knob on side) to zero the 407A on the highest sensitivity
+
+Use the front adjust (flathead screwdriver needed) to zero on the lowest sensitivity
+
+\clearpage
+\section{Lytron Kodiak RC006}
+
+We have one Lytron Kodiak RC006:
+Model Number RC006G03BB1C002
+Serial Number 739383-02
+
+Regular Chiller Maintenance:
+\begin{denumerate}
+  \item Gather supplies.
+    \begin{enumerate}
+      \item 1 gallon distilled water (do not use deionized)
+      \item 1 gallon Nalco 460-PCCL104 (the pink stuff)
+    \end{enumerate}
+  \item Drain system completely.
+    \begin{enumerate}
+      \item Turn off chiller.
+      \item Break tubing at push-to-connect, plugging return.
+      \item Allow chiller to run until liquid stops flowing. You will get a pressure error, ignore
+        (silence) it.
+      \item Use tube to mouth-syphon remaining liquid from within chiller
+      \item Reconnect at push-to-connect
+    \end{enumerate}
+  \item Fill chiller with distilled water (should require <1 gallon), let run for 30 minutes.
+  \item Drain system again.
+  \item Replace filter.
+  \item Fill system with one gallon Nalco 460-PCCL104 (the pink stuff).
+  \item Turn chiller on, top-off with distilled water.
+  \item Record maintenance, order new supplies for next time if necessary.
+\end{denumerate}
+
+In the past we have had trouble with low flow errors upon system startup.  %
+These seem to have been fixed by adding a “high” flow loop connecting the outlet and inlet of the
+chiller.  %
+Ideally the pressure drop across this loop is sufficient to still drive fluid through the laser.  %
+
+% TODO: figure
+
+\clearpage
+\section{PolyScience 6000 Series}
+
+We own two PolyScience chillers---different models but functionally equivalent.
+
+Grey: Serial Number 3E1161245
+
+White and Blue: Serial Number 4K1050550
+
+Regular Chiller Maintenance:
+\begin{enumerate}
+  \item Gather supplies
+\end{enumerate}
+
+maintenance directions
+Gather supplies
+Filter - sold in the stockroom
+1 gallon of Nalco 460-PCCL104 (the pink stuff)
+Drain system completely
+Disconnect red water line and allow chiller to pump water out.
+Push nipple of male end with flat object so check valve is released
+Take off of filter
+Push down to allow water out
+Check filters
+If air filter dirty, wash with water (let dry after washing)
+If water filter is dirty, replace
+Reassemble, fill with Nalco 460-PCCL104 (the pink stuff)
+Turn chiller on and top-off.
+
+\section{NesLab Merlin M33}
+
+
+
 \section{Aligining TOPAS-C}
 
 \section{Aligning Spitfire PRO}
diff --git a/software/chapter.tex b/software/chapter.tex
index 7ad483a..f8ceff7 100644
--- a/software/chapter.tex
+++ b/software/chapter.tex
@@ -10,13 +10,18 @@
 Cutting-edge science increasingly relies on custom software. In their 2008 survey,
 \textcite{HannayJoErskine2009a} demonstrated just how important software is to the modern
 scientist.  %
-\begin{enumerate}[topsep=-1.5ex, itemsep=0ex, partopsep=0ex, parsep=0ex, label=$\rightarrow$]
-	\item 84.3\% of surveyed scientists state that developing scientific software is important or very important for their own research.
-	\item 91.2\% of surveyed scientists state that using scientific software is important or very important for their own research.
-	\item On average, scientists spend approximately 40\% of their work time using scientific software.
-	\item On average, scientists spend approximately 30\% of their work time developing scientific software.
-\end{enumerate}
-Despite the importance of software to science and scientists, most scientists are not familiar with basic software engineering concepts.
+\begin{ditemize}
+	\item 84.3\% of surveyed scientists state that developing scientific software is important or
+    very important for their own research.
+	\item 91.2\% of surveyed scientists state that using scientific software is important or very
+    important for their own research.
+	\item On average, scientists spend approximately 40\% of their work time using scientific
+    software.
+	\item On average, scientists spend approximately 30\% of their work time developing scientific
+    software.
+\end{ditemize}
+Despite the importance of software to science and scientists, most scientists are not familiar with
+basic software engineering concepts.  %
 % TODO: demonstrate that `most scientists are not familiar with basic software engineering concepts'
 This is in part due to the their general lack of formal training in programming and software development. \textcite{HannayJoErskine2009a} found that over 90\% of scientists learn software development through `informal self study'. Indeed, I myself have never been formally trained in software development.