plot(c(1:10))
when put into a pdf file via pdf() device, will display incorrect
symbols in linux pdf viewers (evince, okular). The circles (o) become
q, literally the letter q, and lose colors.
This issue is already in the Notes section of ?pdf. It remains to be
seen if the OP's problem was this exact one, since they didn't specify
an example.
From ?pdf,
On some systems the default plotting character ‘pch = 1’ is
displayed in some PDF viewers incorrectly as a ‘"q"’ character.
(These seem to be viewers based on the ‘poppler’ PDF rendering
library). This may be due to incorrect or incomplete mapping of
font names to those used by the system. Adding the following
lines to ‘~/.fonts.conf’ or ‘/etc/fonts/local.conf’ may circumvent
this problem.
<alias binding="same">
<family>ZapfDingbats</family>
<accept><family>Dingbats</family></accept>
</alias>
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