pdfTeX
File hparc.pdf
has embeded the font LMRoman12-Regular
as OpenType font as used in Adobe Illustrator:
$ pdffonts hparc.pdf
name type emb sub uni object ID
------------------------------------ ----------------- --- --- --- ---------
PJUQXT+LMRoman12-Regular Type 1C yes yes no 5 0
When pdfTeX embeds a figure, it first checks, if it knows the fonts in order to merge the used font glyphs to avoid adding more one font file for the same font. However, it does not know the specified glyph names for the ligatures (maybe a Unicode mapping in the PDF file would help, see no
for column uni
of the output of pdffonts
) and generates warnings:
pdfTeX warning: pdflatex (file [...]/texmf-dist/font
s/type1/public/lm/lmr12.pfb): glyph `f_f' undefined
pdfTeX warning: pdflatex (file [...]/texmf-dist/font
s/type1/public/lm/lmr12.pfb): glyph `f_l' undefined
Remember, it cannot use the original OpenType version of the font.
Therefore these glyphs are missing.
There is a workaround. If pdfTeX does not know the font, it merely copies the font found in the PDF file. The following line at the very beginning of the TeX file works here, the other fields of a map line seem not to be needed:
\pdfmapline{-dummy LMRoman12-Regular}
Full example:
\pdfmapline{-dummy LMRoman12-Regular}
\documentclass[12pt]{report}
\usepackage[T1]{fontenc}
\usepackage{lmodern}
\usepackage{graphicx}
\begin{document}
\begin{figure}[htb]
\centering
\includegraphics[width=.9\textwidth]{hparc}
\caption[Architecture of the simulation model]
{Architecture of the simulation model, connection between IDA~ICE and
Matlab}
\label{fig:hparc}
\end{figure}
\end{document}

If the document also uses the same font, then the font file is embedded twice.
LuaTeX and XeTeX
LuaTeX and XeTeX both support OpenType fonts and show the ligatures
without any workaround.
Hint
The width of the image is: 705.77806 pt.
The embedded with of the image in the document is 0.9\textwidth
= 350.99762 pt. That is a scaling factor of 0.94732 ≈ 0.5.
The design size is 12pt, but the actually used size is 6pt, which is pretty small. Therefore I recommend
using the full available space: full \textwidth
to increase the scaling factor by approximately 10 percent to 0.55 (font size 6.6pt) and
using a smaller design size, Latin Modern 8 Regular
instead of Latin Modern 12 Regular
.
hparc.pdf
available for analysis? BTW, the ligatures "fl" and "ff" are missing.