# sphinxtr: The Sphinx Thesis Resource¶

## Abstract¶

This project is a collection of extensions and monkey patches to Sphinx to better format a PhD thesis.

## Acknowledgements¶

Thanks to Sphinx for a kickass build system and docutils for the groundwork of multiple format output.

To my parents.

## 1 Introduction¶

Creating a PhD thesis is typically done using LaTeX. This works really well for producing a PDF, but a giant PDF file is not a great way to put documents on the web. There are solutions that exist to turn latex source files into HTML, but in my experience, they tend to produce poor HTML output.

The Sphinx project is a wonderful tool for creating portable documents, allowing for output to many different formats. Unfortunately, it has many shortcomings when trying to typeset something so advanced as a PhD thesis. The aim of this project is to modify Sphinx to support all of the needs of a thesis writer. Many of the patches are not appropriate for contributing directly to the upstream Sphinx repository, so this is instead a separate project.

This sphinxtr output is available in several formats at: http://jterrace.github.com/sphinxtr.

The source code for sphinxtr can be found at: https://github.com/jterrace/sphinxtr.

### 1.1 Installation¶

Install the required Python packages:

pip install -r requirements.txt

### 1.2 Building¶

You need make. The following targets are supported:

html
Builds HTML format, separated into sections
singlehtml
Builds HTML format on a single page
text
Builds text files, separated into sections
singletext
Builds a single text file
latexpdf
Builds into latex source files and then compiles into a PDF. Requires latex.

### 1.3 Changes¶

• A cross-format bibtex bibliography based on sphinx-natbib
• Tables that can go inside figures
• Changed table formatting to look pretty, like booktabs
• Improved alignment in table environment
• Added support for short captions that show up in the "list of figures" section
• Changed equation reference formatting from "(1)" to "1"
• Full customization of latex preamble and style file
• Numbered figures
• Numbered section references
• A singletext output that builds into a single text file, similar to singlehtml
• A subfigure environment

## 2 Typography¶

This chapter has typography stuff. This also shows how to have a toctree inside a chapter.

The title of this chapter, "Typography", is the first heading level. This section, "Headings", is the second level.

#### 2.1.1 Third-level¶

The third level heading. You probably shouldn't go beyond this because it just looks ridiculous, but you can anyway.

### 2.2 Text¶

You can make emphasized text.

You can make bold text.

You can make fixed-width font.

You can make block quotes:

this is a block quote

You can make code blocks:

this is a code block

Some convenience substitutions are defined in the epilog:

• e.g.,
• i.e.,
• et al.
• dash—
• non-breaking space -> <-

You can have inline superscript or subscript text.

Big quotes, also known as an epigraph:

Your avatar can look any way you want it to, up to the limitations of your equipment. If you're ugly, you can make your avatar beautiful. If you've just gotten out of bed, your avatar can be wearing beautiful clothes and professionally applied makeup. You can look like a gorilla or a dragon, or a giant talking penis in the Metaverse. Spend five minutes walking down the street, and you will see all of these.

—Neal Stephenson, Snow Crash

## 3 Lists¶

This is a few examples of different list types.

• item 1
• item 2
• item 3
• item 4
• item 5

1. item 1
2. item 2
1. item 3
2. item 4
3. item 5

term1
definition 1
term2
definition 2
term3
definition 3

term

definition

• list1
• list2
term2

something

1. num1
2. num2
• list1
• list2
3. num3

## 4 Math¶

Math uses latex math syntax:

$A^{''}_c = \sqrt[3]{ (\frac{L^2_c}{\sum{L^2}}) (\frac{A_c}{\sum{A}}) (\frac{A'_c}{\sum{A'}}) } \cdot T$

Equations can have labels which you can reference 1.

(1)$\frac{log(1 + E_{current})}{log(1 + E_{max})}$

## 5 References and Citations¶

You can reference a section by its label. This chapter is Chapter 5.

### 5.1 Subsection¶

This subsection is Section 5.1.

### 5.2 Citations¶

COLLADA [1] is a cool 3D file format. I wrote a paper about 3D stuff [3]. The website we built is running [2]. The bibliography is in bibtex format.

### 5.3 Footnotes¶

Reference a footnote 1.

## 6 Figures and Tables¶

### 6.1 Vector SVG Figures¶

Vector figures are nicely supported. You should have a PDF file and an SVG file. The PDF will be used for the latex output and the SVG for the HTML output. The HTML output has a nice zoom feature using Colorbox.

Figure 6.1: The Sirikata metaverse platform architecture.

See an example in Figure 6.1. I suggest making figures in something like Inkscape. If you have only a vector PDF, you can use pdf2svg to convert (brew install pdf2svg or apt-get install pdf2svg).

### 6.2 Image Figures¶

Regular rasterized images work fine too.

Figure 6.2: The Open3DHub website allows browsing of 3D meshes.

A PNG example is shown in Figure 6.2.

### 6.3 Subfigures¶

The subfigure directives allow you to place multiple figures side-by-side in the document. Here's an example:

(a) Base Mesh + 128x128 Texture (334 KB)

(b) Base Mesh + 25% Stream + 256x256 Texture (568 KB)

(c) Base Mesh + 50% Stream + 512x512 Texture (923 KB)

(d) Base Mesh + 75% Stream + 1024x1024 Texture (1755 KB)

(e) Base Mesh + 100% Stream + 2048x2048 Texture (4385 KB)

(f) Original Mesh (913 KB)

Figure 6.3: Example of a teddy bear model at different resolutions of the progressive format (1 draw call) and its original format (16 draw calls). The size in KB assumes downloading progressively, e.g., 6.3e's size includes lower-resolution textures.

You can reference the entire Figure 6.3 or one of its subfigures, e.g., Figure 6.3f.

### 6.4 Table¶

Tables can be put inside the figtable directive which automatically numbers them, adds a caption, and adds a label.

Progressive 128 256 512 1024 2048
0% 0.53 0.63 0.81 1.03 1.35
25% 0.65 0.75 0.97 1.16 1.45
50% 0.74 0.85 1.02 1.26 1.58
75% 0.79 0.95 1.11 1.34 1.70
100% 0.88 0.99 1.20 1.44 1.82

Figure 6.4: Mean size of progressive format as a fraction of the original across all test models, shown as a function of the progressive stream downloaded and texture resolution.

Table 6.4 has all right-aligned columns.

Left Align Right Align
Some text is left align Followed by right-aligned
Some more text here And more text here
And even more text Also even more text here

Figure 6.5: This table has mixed alignment

Table 6.5 has one column left-aligned and one column right-aligned.

### 6.5 Text Wrapping Table¶

Text wrapping in tables work if you specify the width and either raggedleft or raggedright.

Column Family Description
Users Stores a list of users who have authenticated with OpenID.
Names Stores a list of the 3D models in the database with their associated metadata.
TempFiles Temporarily stores the binary file data of uploaded files until they have been processed.
Files Stores the binary file data for uploaded and verified files.
Sessions Stores HTTP session information used by the Django framework to look up session state associated with a user's browser cookie.
OpenIdAssocs, OpenIdNonces Stores OpenID authentication information for users.
CeleryResults Stores the result of application processing tasks (see Section something).
APIConsumers Stores a list of consumers of the API for use with the OAuth protocol.

Figure 6.6: A list of Open3DHub's Cassandra column families and their descriptions

A text wrapping table example is shown in Figure 6.6.

## Bibliography¶

 [1] Khronos Group Inc., The. COLLADA - Digital Asset Schema Release 1.4.1 Specification (2nd Edition). http://www.khronos.org/files/collada_spec_1_4.pdf, 2008. [2] Open3DHub. http://open3dhub.com/ [3] J. Terrace, E. Cheslack-Postava, P. Levis, M. J. Freedman. Unsupervised Conversion of 3D Models for Interactive Metaverses. Proc. ICME '12, 2012.