Merge remote-tracking branch 'upstream/225-ebook-situation' into 225-ebook-situation

book/book.tex

@@ -39,6 +39,7 @@ At around  \qty{60}{\degreeCelsius} (\qty{140}{\degF}) the microbes in your
 dough start to die.  There are rumors that until this happens the microbes
 produce a lot of \ch{CO2}.
 
+% Does not work
 \begin{figure}[!htb]
 \begin{center}
   \input{figures/fig-ethanol-oxidation.tex}
@@ -46,7 +47,31 @@ produce a lot of \ch{CO2}.
       acid~\cite{acetic+acid+production}.}%
   \label{fig:ethanol-oxidation}
 \end{center}
+\end{figure}
 
+% Works
+% Generate first with: cd figures && pdflatex fig-ethanol-oxidation-external.tex
+\begin{figure}[!htb]
+  \begin{center}
+    \includegraphics{figures/fig-ethanol-oxidation-external.png}
+    \caption[Acetic acid creation]{Oxygen is required to create acetic
+        acid~\cite{acetic+acid+production}.}%
+  \end{center}
+\end{figure}
+
+% Does not work
+\begin{figure}[!htb]
+\begin{center}
+  \input{figures/fig-life-planet-sourdough-timeline.tex}
+  \caption[Sourdough microbiology timeline]{Timeline giberrish on website}%
+\end{center}
+\end{figure}
+
+% Works
+% Generate first with: cd figures && pdflatex fig-life-planet-sourdough-timeline-external.pdf
+\begin{figure}[!htb]
+  \includegraphics{figures/fig-life-planet-sourdough-timeline-external.png}
+  \caption[Sourdough microbiology timeline]{Timeline works embedded as png}%
 \end{figure}
 
 \begin{figure}[!htb]
@@ -72,7 +97,6 @@ a sample of your brew and checking the color.
             different baking methods.}
     \end{center}
 \end{table}
-\printbibliography
 {%
 \hypersetup{hidelinks}
 \listofflowcharts

book/figures/export_figures.sh

@@ -10,6 +10,7 @@ if [ "$#" -ne 1 ]; then
     done
 else
     target=figures/`basename $1 .png.pdf`.png
+    echo ${target}
     echo "Converting: " $1 " to: " ${target}
     convert -density 900 -trim $1 -quality 100 ${target}
 fi

book/figures/fig-ethanol-oxidation-external.tex

@@ -0,0 +1,11 @@
+\documentclass[tikz]{standalone}
+\usepackage{chemfig}
+\begin{document}
+\footnotesize
+\schemestart
+\chemfig{H-C(-[2]H)(-[6]H)-C(-[2]H)(-[6]H)-O(-[7]H)} \+
+\chemfig{O_2} \arrow
+\chemfig{H-C(-[2]H)(-[6]H)-C(=[1]O)-[7]O-H} \+
+\chemfig{H_2O}
+\schemestop
+\end{document}

book/figures/fig-life-planet-sourdough-timeline-external.tex

@@ -0,0 +1,87 @@
+\documentclass[tikz]{standalone}
+\usepackage{tikz}
+
+\definecolor{codeblack}{RGB}{40, 40, 40}
+
+\definecolor{pinkpic}{RGB}{246, 183, 194}
+
+\tikzstyle{timeline_event}=[align=center, fill=white, inner sep=2pt]
+
+\tikzstyle{timeline_timespan} = [rectangle, draw=codeblack, fill=pinkpic,  text=black,
+    text centered, rounded corners, line width=0.4mm]
+
+
+
+\begin{document}
+
+\begin{tikzpicture}
+  % Draw horizontal line
+  \draw[line width=1pt] (0,0) -- (\textwidth,0);
+
+  % Define the width of each segment
+  \pgfmathsetlengthmacro{\segmentwidth}{\textwidth/12}
+
+  % Draw lines for the events, higher up so that they don't overflow the text
+  % Placing the lines has been a bit manual work of trying different values
+  % Maritime bacteria.
+
+  \draw[line width=1pt] (2.8*\segmentwidth,1) -- (2.8*\segmentwidth,0.2);
+  % Eukaryotes
+  \draw[line width=1pt] (5.8*\segmentwidth,1.5) -- (5.8*\segmentwidth,0.2);
+  % First bacteria on land
+  \draw[line width=1pt] (9.1*\segmentwidth,-1.25) -- (9.1*\segmentwidth,-0.2);
+  % Maritime fungi ancestors
+  \draw[line width=1pt] (9.5*\segmentwidth,-2) -- (9.5*\segmentwidth,-0.2);
+  % Fungi on land
+  \draw[line width=1pt] (10.8*\segmentwidth,-2.75) -- (10.8*\segmentwidth,-0.2);
+  % Yeasts on land
+  \draw[line width=1pt] (11.1*\segmentwidth,-3.0) -- (11.1*\segmentwidth,-0.2);
+  % First dinosaurs
+  \draw[line width=1pt] (11.4*\segmentwidth,0.5) -- (11.4*\segmentwidth,0.2);
+  % Pangea begins to rift apart
+  \draw[line width=1pt] (11.6*\segmentwidth,1) -- (11.6*\segmentwidth,0.2);
+  % Dinosaur extinction
+  \draw[line width=1pt] (11.9*\segmentwidth,1.5) -- (11.9*\segmentwidth,0.2);
+
+  % Special lines for december events since they are so close togehter
+  \draw[line width=1pt] (12.0*\segmentwidth,3.0) -- (12.0*\segmentwidth,0.2);  % Main branch
+  \draw[line width=1pt] (12.0*\segmentwidth,3.0) -- (11.75*\segmentwidth,2.5); % Branch to first humans
+  \draw[line width=1pt] (12.0*\segmentwidth,3.0) -- (11.75*\segmentwidth,3.0); % Branch to Jordan
+  \draw[line width=1pt] (12.0*\segmentwidth,3.0) -- (11.75*\segmentwidth,3.5); % Branch to Pasteur
+
+  % Draw months and month separators
+  \foreach \i/\month in {0/Jan, 1/Feb, 2/Mar, 3/Apr, 4/May, 5/Jun, 6/Jul, 7/Aug, 8/Sep, 9/Oct, 10/Nov, 11/Dec} {
+      % Separators
+      \draw[line width=1pt] (\i*\segmentwidth,0.1) -- (\i*\segmentwidth,-0.1);
+      % Month names
+      \node[timeline_event, below] at ({(\i+0.5)*\segmentwidth},-0.1) {\month};
+  }
+  \draw[line width=1pt] (\textwidth,0.1) -- (\textwidth,-0.1);
+
+  % Full timeline width for billion years
+  \draw[line width=1pt] (0,-3.8) -- node[midway, timeline_timespan] {5.45 billion years} (\textwidth,-3.8);
+  \draw[line width=1pt] (0,-3.7) -- (0,-3.9);
+  \draw[line width=1pt] (\textwidth,-3.7) -- (\textwidth,-3.9);
+
+  % Indicator for the period of 3 months = 1.1 billion years
+  \draw[line width=1pt] (0,-1.0) -- node[midway, timeline_timespan] {1.11 billion years} ({\segmentwidth * 3},-1.0);
+  \draw[line width=1pt] (0,-0.9) -- (0,-1.1);
+  \draw[line width=1pt] ({\segmentwidth * 3},-0.9) -- ({\segmentwidth * 3},-1.1);
+
+  % Place events on the timeline with dates using the timeline_event style
+  % As a calculation I used (4.54 billion years / 12 months = 0.3785 billion years/month.
+  \node[timeline_event, above] at (2.0*\segmentwidth,1) {Mar 25 - First maritime bacteria and archae};
+  \node[timeline_event, above] at (4.50*\segmentwidth,1.5) {June 25 - First organisms with nuklei (eukaryotes)};
+  \node[timeline_event, above] at (7.8*\segmentwidth,-1.5) {Oct 4 - First bacteria on land};
+  \node[timeline_event, above] at (8.0*\segmentwidth,-2.25) {Oct 15 - First maritime ancestors of fungi};
+  \node[timeline_event, above] at (9.7*\segmentwidth,-2.75) {Nov 24 - Fungi on land};
+  \node[timeline_event, above] at (10.5*\segmentwidth,-3.25) {Dec 3 - Yeasts on land};
+  \node[timeline_event, above] at (10.2*\segmentwidth,0.5) {Dec 14 - First dinosaurs};
+  \node[timeline_event, above] at (9.8*\segmentwidth,1) {Dec 17 - Pangea begins to rift apart};
+  \node[timeline_event, above] at (10.33*\segmentwidth,1.5) {Dec 29 - Dinosaurs go extinct};
+  \node[timeline_event, above, anchor=east, align=right] at (11.75*\segmentwidth,2.5) {Dec 31 - First humans};
+  \node[timeline_event, above, anchor=east, align=right] at (11.75*\segmentwidth,3.0) {Dec 31 - Sourdough in Jordan (23:59:55)};
+  \node[timeline_event, above, anchor=east, align=right] at (11.75*\segmentwidth,3.5) {Dec 31 - Louis Pasteur isolated yeast (23:59:59)};
+
+\end{tikzpicture}
+\end{document}

book/makefile

@@ -74,12 +74,19 @@ tgt_figures := $(patsubst %.tex, %.png,$(src_figures))
 %.png: %.tex
 	@echo "\input{./vars.tex}" > $@.in
 	# \b is backspace..
-	@echo "\\\begin{document}" >> $@.in
+	@echo "\\begin{document}" >> $@.in
 	@cat $< >> $@.in
-	@echo "\\\end{document}" >> $@.in
+	@echo "\\end{document}" >> $@.in
 	$(LATEX) $@.in
 	figures/export_figures.sh $@.pdf
 
+
+figures/fig-ethanol-oxidation-external.pdf: figures/fig-ethanol-oxidation-external.tex
+	$(LATEX) $<
+
+figures/fig-life-planet-sourdough-timeline-external.pdf: figures/fig-life-planet-sourdough-timeline-external.tex
+	$(LATEX) $<
+
 %.xbb: %.jpg
 	ebb -x $<
 
@@ -91,7 +98,10 @@ book_sans_serif/book_sans_serif.pdf: $(src_all)
 
 .PHONY: copy_ebook_files
 
-epub/%.epub: %.tex $(ebook_src) cover/cover-page.xbb
+epub/%.epub: %.tex $(src_all) cover/cover-page.xbb\
+	figures/fig-life-planet-sourdough-timeline-external.pdf\
+	figures/fig-ethanol-oxidation-external.pdf
+
 	$(EBOOK) $<
 
 copy_ebook_files: build_ebook