Paragraph ended before \Hy@setref@link was complete

This was due to having a regulare closing parenthesis directly after the curly bracket that closed a \ref, like this: (see section \ref{section-1}). Putting in a space between the closing curly bracket and parenthesis solved the problem: ... section-1} )

If you use R, you most likely want ESS (Emacs Speaks Statistics) for your GNU Emacs. If you use LaTeX, you will also want AucTeX.

I highly recommend you use Vincent Goulet’s modified Emacs version. As an additional benefit, it comes as a convenient self-installing .exe file.

Thanks Vincent!

p.s. To get LaTeX on Windows, you will want to get MiKTeX. MiKTeX is very nice and can auto-install missing packages on the fly when you want to use them in a document.

Since this is not available through aptitude, you have to download the source and compile, it but it’s straightforward if you follow the readme file that comes with the package. Above all, Ubuntu proved great as usual at helping me get the missing dependencies, by automatically suggesting which package I needed to aptitude when I typed a command it didn’t find (curl-config and cmake).

I just had one problem: when I tried to update the mpm database, I got:

mpm --update-db
mpm: error while loading shared libraries: libMiKTeX207-core.so.1: cannot open shared object file: No such file or directory

It turns out the source files were in a different location, and all I had to do was:

sudo ldconfig

Now installing packages is as easy as:

mpm --install=emerald

Since typing in all those commands including the now necessary Sweave gets quite tedious, I created a little shell script sweavetex:

#!/bin/bash

R CMD Sweave "$1".Rnw  || exit 1
latex "$1".tex || exit 1
dvips "$1".dvi || exit 1
ps2pdf -dAutoRotatePages=/None "$1".ps || exit 1

Some normal text

\begin{landscape}
Some text that should be oriented horizontally.
A page break automatically gets put in before and after.
\end{landscape}

Revert back to portrait orientation.

This works fine, except when I include a {figure} environment inside the {landscape} environment: In the resulting .dvi file, the figure is in the correct landscape orientation, but the caption is oriented in portrait mode on the same page, running off the page.

I don’t know how to fix this problem for the .dvi file, but when I run …

dvipdfm file.dvi

… the resulting .pdf has the caption oriented correctly.

I can put packages in my home directory at ~/texmf/tex/latex/, and into subdirectories of that dir. Then, say:

texhash

This will complain that it can’t update the system-wide texmf info, but no prob if no changes were made to that. So I moved sciposter.cls there instead of having to put it into every dir containing a poster I want to latex.

Some really good information about this, and alternatives.

dia -e file.eps -t eps-builtin file.dia

This is in the preamble of my document (let’s say poster.tex), for a landscape formatted poster on A0 paper:

\documentclass[landscape,a0,plainboxedsections]{sciposter}

\usepackage{epsfig}
% \usepackage{amsmath}
% \usepackage{amssymb}
\usepackage{multicol}
\usepackage{avant}
\usepackage{sfmath}

I don’t remember what the commented-out packages would do. In the directory that contains my poster.tex, I have the corresponding files sciposter.cls and sfmath.sty. I’m sure you could also put them in your regular texmf-tree (more info on texmf tree). In the same directory (as poster.tex) I also have a0size.sty.

If you have no figures in your poster, just do:

pdflatex poster.tex

I usually have figures, and I like them to be eps format, since that means they scale nicely. In that case, you need to run latex first, since pdflatex can’t handle eps files. However, you then need to pass some options to dvips. For a poster in landscape format, run:

latex poster.tex
dvips -t a0 -t landscape poster.dvi
ps2pdf poster.ps

For portrait formatted posters, just omit -t landscape.

To spare yourself lots of typing, you could make a very small shell script called “poster” containing:

#!/bin/sh

latex $1.tex
dvips -t a0 -t landscape $1.dvi
ps2pdf $1.ps

Put it in your ~/bin and chmod 700 ~/bin/poster

Then, to process file poster.tex, just say:

poster poster

Of course, R outputs nice .eps figures, and for diagrams under Linux, I use dia, which lets you export to many formats, including eps (maybe read this post about dia fonts in eps files.

Advantages:

• Clear and intuitive layout
• Can import and export BibTeX references.
• Can export EndNote and RSS.
• Lets you manually edit BibTeX citation keys (unlike Connotea).
• Lets you upload a personal .pdf copy.
• Can automatically add a post from a number of publisher’s URLs, via a bookmarklet.
• You can also manually add a citation, in case it is not online (again, seems this is not possible with Connotea).
• The interface for searching your articles is intuitive and fast (for my handful of articles so far), and there’s a nice function for filtering by keywords (tags) either within your own library or for all articles.
• Haven’t tried the function for “groups”, but this could be nice for labs.
• It is free.

Disadvantages:

• It does not recognize doi.
• When I visit a publisher’s URL via the university library website, CiteULike is not able to extract information about that article, even though it can extract the information just fine when I visit the publisher’s URL directly (probably has to do with the library proxy servers?).
• It is not open source

pdflatex file.tex

However, using that method, you cannot include .eps graphics, and bitmap graphics often look bad in your presentation. As an alternative, run:

latex file.tex

followed by

divps file.dvi

and then

ps2pdf file.ps

Note that going directly “dvipdfm file.dvi” does not work for me (does not handle overlays correctly). Sometimes, ps2pdf tries to rotate individual pages wrong. In that case, say:

ps2pdf -dAutoRotatePages=/None file.ps

You can, of course, combine the above commands into a shell script.