WEBVTT captioned by sachac

NOTE Introduction

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Okay. Hi, everyone. My name is Vincent. I'm a PhD student in

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Nanzan University, Japan. Today I'm going to present to

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you how I'm using Org notes and Org Roam to write academic

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papers. The slides I'm going to present here are available

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in the Git repository, so you can check them later

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if you want to.

NOTE What?

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Firstly what are we talking about here?

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So in general, it's possible, if you have any Org nodes,

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to export them as LaTeX. Given some extra configuration,

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it's possible, basically, to reproduce any LaTeX setup

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that you would use to create documents with an Org file.

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In my case, I'm using that system to take some notes

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that I have in my org-roam system

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and to export that into finished academic papers

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that you can submit eventually to a conference and so on.

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Actually, before I submit that proposal, after I submit

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that proposal, I just noticed that Mike Hamrick in last

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year's EmacsConf made a very extensive presentation about

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org export. But in here, I just want to showcase my usage of

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org-roam and to present what are the configuration I'm

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using to be able to achieve that. Why do that?

NOTE Why?

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In general, like I said, I'm using that

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as part of my writing system, so in

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having org-roam notes that can be exported as a document

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make for a great workflow in my opinion. It makes Org even

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more versatile, so if you use that for maybe writing code in

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the literate programming, now you're going to be also able

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to export that into any format you want.

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The Org notes are very clean. In my opinion, it looks

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better to work in Org rather than editing LaTeX code

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directly. The centralized bibliography system is also

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great because it allows to have just a few notes that you can

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reference everywhere and have links to them. Of course

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everything is happening inside of Emacs so you have access

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to all the tools you are used to like Magit or Projectile and

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whatnot.

NOTE Challenges

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However, to quote one of the funniest recent

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video about Emacs: "[With LaTeX,] I used to spend hours trying to

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get the image on the right page. Now I use Org Mode LaTeX and

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just accept it's impossible." Like all the jokes in that

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video, it lands in very well because there is some truth to

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that in that with that system you are not getting rid of

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the complexity of LaTeX, so if you have problems, you're going to

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have to deal with the very long logs. It's a layer on top of

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LaTeX, so if you need to debug your configuration, if you

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want to adjust something specific, you would need to be

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proficient in LaTeX and also in being very at ease with

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your Emacs configuration. The way to use the Org export is

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less documented than using LaTeX so if you want to implement

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something, probably it's going to be described in pure LaTeX,

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and then you're going to need to adjust that to make it work

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inside your Org files. I explained before that the

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bibliography system is great, although it's very picky

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on the way it works, especially to be exported. Depending

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on the template you are using, you might run into issues

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with some packages that are in conflict, so there is

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that to be taken in mind.

NOTE Basic Org to PDF

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In general, if you have a Org note, you can simply export it

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with a C-c C-e and l o with the menu that appears. I can

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show that briefly: C-e, then you have the menu. You can select

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l and o to export. That works very well. In general,

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with that, you are able to deal with everything that you have

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in your normal Org notes. If you have images, tables,

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links, it's going to be exported in a way that looks decent.

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That's what we are starting with.

NOTE How to LaTeX properly, though?

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However, if you want to make a publication,

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if you have a template that you receive

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from a conference or whatnot, you want to be able to adapt

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your Org notes to be able to export it exactly the way you

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want. I'm going to present the four points that I'm

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showing here that are, for me, the elements that you need to

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be careful with when you try to work with templates and

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exporting to LaTeX.

NOTE LaTeX-specific headers

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Firstly, you have headers. So basically,

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this allows to add LaTeX elements that are going

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to be at the top of the file. You're going to have the title.

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You're going to have your extra packages here. You're going

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to have your class. I'm going to present that later. That's

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the part that you're going to adjust to make it look like the

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.tex template that you receive.

NOTE Using a formatting class file

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Then you have the formatting class file. That's a .cls file

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that you would receive as a part of the template.

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This one is used instead of the typical doc class like article.

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The way I'm using them is to add an entry,

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like add an element to the list or get a

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class in my Emacs init. This way I can use the CLS file

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directly and also give the parameters that I want. In that

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case, I'm going to have a apris.cls next to my Org note,

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and it's going to be able to to use it.

NOTE Using a different LaTeX command

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A third element is, in some cases,

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you might want to use a different LaTeX compiler to build

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your project, to build your notes. That can be done per

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file, per note, in my opinion, that's the most flexible way,

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by editing, by adding this line as the very first line of your

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file and thus changing the LaTeX PDF process variable. And

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in there, you can put multiple commands in a row.

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For example you can have the shell

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escape to have the minted note block, the BibTeX element, so

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that works very well. When you add that, you need to

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reload your file, though. Something to keep in mind.

NOTE References links for bibliography

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Lastly, you have the bibliography. When you have a reference,

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when you want to put a reference, you can use the

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org-roam-bibtex package that needs to be installed. Then you

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have some configuration to to be set so you have the bibtex

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compilation bibliography, where you explain where is your

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your reference file, your bib file. You can also give a path

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for where to search for PDFs. If you have matching names

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with your BibTeX entries and some PDF files in there,

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they're going to be linked. I'm going to show that later. So

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that's something that's going to be part of your init

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configuration as part of the org-roam-bibtex package

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configuration. Then in the node you are exporting, you want

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to add a section called reference. Here you can set a style

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for the bibliography. Again you put which of the

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reference file you want to use.

NOTE Examples

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With all of that, I'm going to show some examples. Here I

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have an Org note that I used as the file to be exported into a

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publication. You can see up front, I set all my headers

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package. I have some extra package I put. I have the class

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that is something that is next to it. You can see in the

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files, I have the apris.cls just here.

NOTE Tags

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Also, with all of that, you can also add tags. I

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didn't explain that, but you can also ignore some

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sections. That's quite convenient as well. Here we

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have some section, and if you want to add a bibliography,

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you're going to do c l cite:, you can put some cite entry, put

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any file in there, no description, and you're going to put

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some link like that. It's very convenient because, firstly,

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it's going to be exported as a reference like I'm going to

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show later, but also it gives you access to it directly from

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the note. If I click the thing here, I have some menu, I can

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open the bibliography page.

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I can also open the PDF that was linked to it. If I do

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that, here is the file that pops up that was linked to the

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bibliography. That's great. Otherwise, within

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that document, you're going to have other things you can

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have. Figures with parameters set on top, footnotes as well if

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that's something that you need. For example, here it's a

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section that's not exported, but you can have your

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normal footnotes. We can go back and forth. If they are in

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the exported section, they're going to be

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managed. So with that, you can export the notes. You're going to

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C-c C-e so you have that menu for exporting

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Org files. You do l for LaTeX and then o for running directly as

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PDF and opening it. It takes a little while to build. Here we

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are. The templates have been used, so there is a

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two-column situation happening, we have a specific header

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format and figures and the citation that we put. It's

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happening, it's shown here, and it's also going to be

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visible at the end in the reference section. Like I

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said, a fully ready, finished paper can be

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produced this way. That's all that I had for today.

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Thank you very much for your attention. I am

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available for questions on IRC or in the video chat.

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Thank you.