[O] Heading numbering in latex export

[Vikas Rawal]

I am writing a research paper using orgmode. The org file contains the
text of the paper and R source code for generating a graph and some
tables. The paper is still incomplete.

When I try to export the file to pdf via latex, I face a strange
problem. When I export the file first time after opening it, the
graph does not appear. When I do it again, the graph appears fine but
Section numbers are messed up. The main sections are now numbered 0.1,
0.2 etc while the sub-sections are not numbered at all.

In my header, I have:

#+OPTIONS: H:3 toc:nil 

I have changed the value of H but it has no effect.

Can somebody please explain what might be wrong.

I am using org-version 7.9.1.

Vikas