Take the 2-minute tour ×
TeX - LaTeX Stack Exchange is a question and answer site for users of TeX, LaTeX, ConTeXt, and related typesetting systems. It's 100% free, no registration required.

I am writing an organic chemistry dissertation using (pdf)LaTeX. The content of the thesis contains a large amount of numbered chemical structures. The chemical structure drawings were generated using ChemDraw and exported to eps format. Since there are literally hundreds of numbered structures, I wrote a macro that uses a custom counter to keep track of the numbers:

\newcounter{compound}
\def\thecompound{\textbf{\thechapter.\arabic{compound}}}
\newcommand{\cmp}[1]{\refstepcounter{compound}\label{cmp:#1}\textsf{\scriptsize{\thecompound}}}

Each time I want to number a compound, I simply write the command (which automatically increments the counter):

\cmp{uniquestring}

The problem I am having is finding an efficient way to put the compound numbers on the structural drawings (eps figures). What I am using right now is a floating text block over the image that I have to manually align. Here is an example of one of my figures (I defined a custom float called a Scheme):

\begin{Scheme}[h]
  \centering \includegraphics[scale=0.8]{chp_diazobkg/images/shioiritwo}
   \begin{textblock}{1}(1.65,-0.8) \cmp{aax} \end{textblock}
  \begin{textblock}{1}(7,-1) \cmp{aay} \end{textblock}
  \begin{textblock}{1}(13,-1) \cmp{aaz} \end{textblock}
  \begin{textblock}{1}(17.5,-0.5) \cmp{aba} \end{textblock}
  \caption{Facile [1,3]-Brook rearrangement of $\alpha$-keto silane intermediate \ref{cmp:aay}.}
  \label{sch:shioiritwo}
\end{Scheme}

Ideally what I would like to be able to do is use a package like pstool/psfrag so that the unique identifiers could be built into the eps file and get replaced with the compound numbers. Using the pstool package, I am able to do text replacements in eps figures, but when I try to do a replacement with a counter psfrag chokes and can't generate the figure. The code below works fine for me so I know the package is installed correctly.

\psfragfig[scale=0.8]{test}{
  \psfrag{[aaa]}{testing}
}

However, when I try to do something like this no luck (in fact the whole package breaks and no image is generated):

\psfragfig[scale=0.8]{test}{
  \psfrag{[aaa]}{\cmp{xxx}}
}

Or even something simpler like this just gives ?? for the replaced text:

\psfragfig[scale=0.8]{test}{
      \psfrag{[aaa]}{\ref{somefigure}}
    }

Any suggestions would be greatly appreciated.

I have posted a minimal working example with EPS files at: https://sites.google.com/site/vrendina/latex

share|improve this question
1  
I guess it's too late now but there are packages like chemnum for this task. –  cgnieder Jan 19 '13 at 7:48
    
The approach taken by my own chemscheme package is not dissimilar to the one you outline (today I would also recommend chemnum, but that's a different issue). Could you provide a small MWE of your input (i.e a complete document), including an EPS somewhere we can get hold of for testing? –  Joseph Wright Jan 19 '13 at 8:23
    
Works for me, even with the same string [aaa]. The ?? might mean that the label somefigure is not defined. At this point, you really have to provide a MWE. –  mafp Jan 19 '13 at 10:11
    
Assuming you're using \psfragfig as defined by auto-pst-pdf then your syntax is wrong. The last argument is optional: \psfragfig[scale=0.8]{scheme}[\psfrag{TMP}{\cmp{xxx}}]. –  cgnieder Jan 19 '13 at 13:36
    
I think I chose not to use chemnum because I didn't want to have to maintain a list of 100+ compounds at the beginning of each chapter. If I moved a scheme from the end of the chapter to the beginning every number would change and I wanted that updated automatically. –  Victor Rendina Jan 19 '13 at 17:09

1 Answer 1

I think this problem arose because the pstool package creates a separate document containing each figure, and then compiles this with latex -> dvips -> ps2pdf to create a new version of the figure with psfrag replacements included.

According to section 5.2 of the pstool package documentation, support for cross referencing within graphics was added in version 1.5, which I think is slightly newer than the question. The following example works on my machine, so I think the solution is to update your TeX distribution, if you have not already done so.

\documentclass{article}
\usepackage[process=all]{pstool}
\begin{document}
\begin{equation}
a = b \label{eqn}
\end{equation}
\begin{center}
\psfragfig[scale=0.7]{myfig}{\psfrag{mouse}[][]{\ref{eqn}}}
\end{center}
\end{document}

The postscript code for myfig.eps is as follows:

%!PS-Adobe-2.0
%%Title: myfig.eps
%%BoundingBox: 0 0 80 50
%%Orientation: Portrait
%%EndComments
/Times-Roman findfont 15 scalefont
setfont
20 20 moveto (mouse) show showpage
%%Trailer
%EOF
share|improve this answer
    
Thanks for noticing this old question. –  Will Robertson Jul 9 at 23:43

Your Answer

 
discard

By posting your answer, you agree to the privacy policy and terms of service.

Not the answer you're looking for? Browse other questions tagged or ask your own question.