Exporting code blocks to pdf via LaTeX

Question

I am writing a report in org mode and would like to show some code blocks as seen in so many tutorials. Here is some official documentation, however it was written for org-mode 6.xx back in 2011.

I have tried all variations that I have found on my search so far:

#+BEGIN_SRC R
  for(i in 1:19){
      print(i)
  }
#+END_SRC

#+BEGIN_SRC R :exports code
  for(i in 1:19){
      print(i)
  }
#+END_SRC


#+BEGIN_SRC R :exports both
  for(i in 1:19){
      print(i)
  }
#+END_SRC

#+begin_src R
  for(i in 1:19){
      print(i)
  }
#+end_src

#+begin_src R :exports code
  for(i in 1:19){
      print(i)
  }
#+end_src

The output looks like this:

I feel this must therefore be an issue with my setup. Here are (as far as I know) the relevant parts of my .emacs:

(setq org-src-fontify-natively t)

(org-babel-do-load-languages
 'org-babel-load-languages
 '((R . t)
   (latex . t)))

I have org-version 8.2.10 and all my LaTeX packages are up to date. I also have things setup for python, which also doesn't work, further pointing to a faulty setup.

The most promising help I could find was this great tutorial, which creates an environment for using org with Latex/HTML exports and my language of choice R. It is all written in an org file, however I still can't find my problem. The code blocks there, if I generate the .tex and pdf files still do not show up correctly.

Edit 1: TeX buffer output

 % Created 2016-03-08 Tue 08:18

 \documentclass{article}
 \usepackage[utf8]{inputenc}
 \usepackage[T1]{fontenc}
 \usepackage{fixltx2e} 
 \usepackage{graphicx} 
 \usepackage{longtable}
 \usepackage{float} 
 \usepackage{wrapfig} 
 \usepackage{rotating}
 \usepackage[normalem]{ulem}
 \usepackage{amsmath} 
 \usepackage{textcomp}
 \usepackage{marvosym} 
 \usepackage{wasysym}
 \usepackage{amssymb}
 \usepackage{hyperref} 
 \tolerance=1000
 \usepackage{minted}
 \author{user name} 
 \date{\today}
 \title{Org-mode and R: An Introduction} 
 \hypersetup{   pdfkeywords={},   pdfsubject={},  pdfcreator={Emacs 24.5.1 (Org mode 8.2.10)}} 
 \begin{document}

 \maketitle 
 \setcounter{tocdepth}{2}
 \tableofcontents

 \lstset{language=R,label= ,caption= ,numbers=none} 
 \begin{lstlisting}
 for(i in 1:19){
     print(i) } 
 \end{lstlisting}

 \lstset{language=R,label= ,caption= ,numbers=none} 
 \begin{lstlisting}
 for(i in 1:19){
     print(i) } 
 \end{lstlisting}

 \lstset{language=R,label= ,caption= ,numbers=none} 
 \begin{lstlisting}
 for(i in 1:19){
     print(i) } 
 \end{lstlisting}

 \lstset{language=R,label= ,caption= ,numbers=none}
 \begin{lstlisting}
 for(i in 1:19){
     print(i) } 
 \end{lstlisting}

 \lstset{language=R,label= ,caption= ,numbers=none} 
 \begin{lstlisting}
 for(i in 1:19){
     print(i) } 
 \end{lstlisting} % Emacs 24.5.1 (Org mode 8.2.10) 
 \end{document}

Edit 2: Output from the *Org PDF LaTeX Output* buffer

This is pdfTeX, Version 3.14159265-2.6-1.40.16 (TeX Live 2015) (preloaded format=pdflatex)
 restricted \write18 enabled.
entering extended mode

(/path/to/this/file.tex
LaTeX2e <2016/02/01>
Babel <3.9q> and hyphenation patterns for 81 language(s) loaded.
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/article.cls
Document Class: article 2014/09/29 v1.4h Standard LaTeX document class
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/size10.clo))
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/inputenc.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/utf8.def
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/t1enc.dfu)
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/ot1enc.dfu)
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/omsenc.dfu)))
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/fontenc.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/t1enc.def))
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/fixltx2e.sty

Package fixltx2e Warning: fixltx2e is not required with releases after 2015
(fixltx2e)                All fixes are now in the LaTeX kernel.
(fixltx2e)                See the latexrelease package for details.

) (/usr/local/texlive/2015/texmf-dist/tex/latex/graphics/graphicx.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/graphics/keyval.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/graphics/graphics.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/graphics/trig.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/latexconfig/graphics.cfg)
(/usr/local/texlive/2015/texmf-dist/tex/latex/pdftex-def/pdftex.def
(/usr/local/texlive/2015/texmf-dist/tex/generic/oberdiek/infwarerr.sty)
(/usr/local/texlive/2015/texmf-dist/tex/generic/oberdiek/ltxcmds.sty))))
(/usr/local/texlive/2015/texmf-dist/tex/latex/tools/longtable.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/float/float.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/wrapfig/wrapfig.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/rotating/rotating.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/ifthen.sty))
(/usr/local/texlive/2015/texmf-dist/tex/generic/ulem/ulem.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsmath/amsmath.sty
For additional information on amsmath, use the `?' option.
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsmath/amstext.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsmath/amsgen.sty))
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsmath/amsbsy.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsmath/amsopn.sty))
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/textcomp.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/ts1enc.def
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/ts1enc.dfu)))
(/usr/local/texlive/2015/texmf-dist/tex/latex/marvosym/marvosym.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/wasysym/wasysym.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsfonts/amssymb.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsfonts/amsfonts.sty))
(/usr/local/texlive/2015/texmf-dist/tex/latex/hyperref/hyperref.sty
(/usr/local/texlive/2015/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty
(/usr/local/texlive/2015/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty))
(/usr/local/texlive/2015/texmf-dist/tex/generic/ifxetex/ifxetex.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/oberdiek/auxhook.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/oberdiek/kvoptions.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/hyperref/pd1enc.def)
(/usr/local/texlive/2015/texmf-dist/tex/latex/latexconfig/hyperref.cfg)
(/usr/local/texlive/2015/texmf-dist/tex/latex/url/url.sty))

Package hyperref Message: Driver (autodetected): hpdftex.

(/usr/local/texlive/2015/texmf-dist/tex/latex/hyperref/hpdftex.def
(/usr/local/texlive/2015/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty))
(/usr/local/texlive/2015/texmf-dist/tex/latex/minted/minted.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty
Style option: `fancyvrb' v2.7a, with DG/SPQR fixes, and firstline=lastline fix 
<2008/02/07> (tvz))
(/usr/local/texlive/2015/texmf-dist/tex/latex/tools/calc.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/ifplatform/ifplatform.sty
(/usr/local/texlive/2015/texmf-dist/tex/generic/oberdiek/catchfile.sty)

Package ifplatform Warning: 
    shell escape is disabled, so I can only detect \ifwindows.

) (/usr/local/texlive/2015/texmf-dist/tex/latex/etoolbox/etoolbox.sty)
(/usr/local/texlive/2015/texmf-dist/tex/generic/xstring/xstring.sty
(/usr/local/texlive/2015/texmf-dist/tex/generic/xstring/xstring.tex))
(/usr/local/texlive/2015/texmf-dist/tex/latex/lineno/lineno.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/t1cmtt.fd))

! Package minted Error: You must invoke LaTeX with the -shell-escape flag.

See the minted package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.20 \author
            {user name}

! Package minted Error: Missing Pygments output; \inputminted was
probably given a file that does not exist--otherwise, you may need 
the outputdir package option, or may be using an incompatible build tool.

See the minted package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.20 \author
            {user name}^^M

! Package minted Error: You must have `pygmentize' installed to use this packag
e.

See the minted package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.27 \begin{document}

(.//delete_this.aux)
(/usr/local/texlive/2015/texmf-dist/tex/latex/base/ts1cmr.fd)
(/usr/local/texlive/2015/texmf-dist/tex/context/base/supp-pdf.mkii
[Loading MPS to PDF converter (version 2006.09.02).]
) (/usr/local/texlive/2015/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/oberdiek/grfext.sty)
(/usr/local/texlive/2015/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg))
(/usr/local/texlive/2015/texmf-dist/tex/latex/hyperref/nameref.sty
(/usr/local/texlive/2015/texmf-dist/tex/generic/oberdiek/gettitlestring.sty))
(.//delete_this.out) (.//delete_this.out)
(/usr/local/texlive/2015/texmf-dist/tex/latex/xcolor/xcolor.sty
(/usr/local/texlive/2015/texmf-dist/tex/latex/latexconfig/color.cfg))

! Package minted Error: Missing Pygments output; \inputminted was
probably given a file that does not exist--otherwise, you may need 
the outputdir package option, or may be using an incompatible build tool.

See the minted package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.27 \begin{document}
                     ^^M
(/usr/local/texlive/2015/texmf-dist/tex/latex/wasysym/uwasy.fd)
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsfonts/umsa.fd)
(/usr/local/texlive/2015/texmf-dist/tex/latex/amsfonts/umsb.fd)
(.//delete_this.toc)
! Undefined control sequence.
l.33 \lstset
            {language=R,label= ,caption= ,numbers=none}

! LaTeX Error: Environment lstlisting undefined.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.34 \begin{lstlisting}


! LaTeX Error: \begin{document} ended by \end{lstlisting}.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.38 \end{lstlisting}

! Undefined control sequence.
l.40 \lstset
            {language=R,label= ,caption= ,numbers=none}

! LaTeX Error: Environment lstlisting undefined.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.41 \begin{lstlisting}


! LaTeX Error: \begin{document} ended by \end{lstlisting}.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.45 \end{lstlisting}

! Undefined control sequence.
l.48 \lstset
            {language=R,label= ,caption= ,numbers=none}

! LaTeX Error: Environment lstlisting undefined.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.49 \begin{lstlisting}


! LaTeX Error: \begin{document} ended by \end{lstlisting}.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.53 \end{lstlisting}

! Undefined control sequence.
l.55 \lstset
            {language=R,label= ,caption= ,numbers=none}

! LaTeX Error: Environment lstlisting undefined.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.56 \begin{lstlisting}


! LaTeX Error: \begin{document} ended by \end{lstlisting}.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.60 \end{lstlisting}

! Undefined control sequence.
l.62 \lstset
            {language=R,label= ,caption= ,numbers=none}

! LaTeX Error: Environment lstlisting undefined.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.63 \begin{lstlisting}


! LaTeX Error: \begin{document} ended by \end{lstlisting}.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              

l.67 \end{lstlisting}

[1{/usr/local/texlive/2015/texmf-var/fonts/map/pdftex/updmap/pdftex.map}]
(.//delete_this.aux) )
(see the transcript file for additional information){/usr/local/texlive/2015/te
xmf-dist/fonts/enc/dvips/cm-super/cm-super-t1.enc}</usr/local/texlive/2015/texm
f-dist/fonts/type1/public/cm-super/sfbx1440.pfb></usr/local/texlive/2015/texmf-
dist/fonts/type1/public/cm-super/sfrm1000.pfb></usr/local/texlive/2015/texmf-di
st/fonts/type1/public/cm-super/sfrm1200.pfb></usr/local/texlive/2015/texmf-dist
/fonts/type1/public/cm-super/sfrm1728.pfb>
Output written on .//delete_this.pdf (1 page, 50965 bytes).
Transcript written on .//delete_this.log.

Answer 1

You have to tell org-mode to actually use the listings or listingsutf8 package in your .emacs:

(add-to-list 'org-latex-packages-alist '("" "listingsutf8"))

Then you'll have a line

\usepackage{listings}

in the exported TeX file and the pdfLaTeX run will give you the result you want to have.

Addition: For minted, I get a satisfying result when using the following .emacs (using information from https://stackoverflow.com/a/21007117/6024971):

(require 'org)
(require 'ox-latex)
(add-to-list 'org-latex-packages-alist '("" "minted"))
(setq org-latex-listings 'minted) 

(setq org-latex-pdf-process
      '("pdflatex -shell-escape -interaction nonstopmode -output-directory %o %f"
        "pdflatex -shell-escape -interaction nonstopmode -output-directory %o %f"
        "pdflatex -shell-escape -interaction nonstopmode -output-directory %o %f"))

(setq org-src-fontify-natively t)

(org-babel-do-load-languages
 'org-babel-load-languages
 '((R . t)
   (latex . t)))

Note, the triple call to pdflatex is to get all the references (including TOC) in the document right.