* How to call nested bash and gnuplot with babel?
@ 2017-08-25 3:26 edgar
0 siblings, 0 replies; only message in thread
From: edgar @ 2017-08-25 3:26 UTC (permalink / raw)
To: emacs-orgmode
Hello, I am trying to run a "nested" babel code with bash and gnuplot.
* Configuration
I did the test like this
#+BEGIN_SRC bash
emacs -Q
#+END_SRC
#+BEGIN_SRC emacs-lisp
(require 'package)
(package-initialize)
(require 'org)
;; Org mode version 9.0.9
(org-babel-do-load-languages ; babel, for executing
'org-babel-load-languages ; code in org-mode.
'((shell . t)
(python . t)
(emacs-lisp . t)
(org . t)
(gnuplot . t)))
#+END_SRC
* Original code
#+NAME: bash-tjp-displ-stress
#+HEADER: :var file1="file1.csv"
#+HEADER: :var col1="3"
#+HEADER: :var file2="file2.csv"
#+HEADER: :var col2="7"
#+HEADER: :dir "Data"
#+BEGIN_SRC bash :results value :exports code
paste "$file1" "$file2" | awk -F',' '/^[^#]/{print $'$col1' $'$col2'}'
#+END_SRC
#+NAME: gplt-tjp-febio-results
#+CAPTION: Gnuplot to plot
#+HEADER: :var data=bash-tjp-displ-stress
#+BEGIN_SRC gnuplot :results graphics :file /tmp/orig-out.png
set xlabel 'var1'
set ylabel 'var2'
plot data u ($1 + 1):2 with lp notitle
#+END_SRC
** Alternative 1: ~:file~ after the function
The result of this gives me the original output file
#+CALL: gplt-tjp-febio-results() :file /tmp/test.png
#+RESULTS:
[[file:/tmp/orig-out.png]]
** Alternative 2: ~:file~ as a prefix to the function
The result of this gives me the original output file
#+CALL: gplt-tjp-febio-results[:file /tmp/test.png]()
#+RESULTS:
[[file:/tmp/orig-out.png]]
* Modified code
If I do this, I get the desired output file (add variable ~outfile~
and ~:results none~)
#+NAME: gplt-tjp-febio-results-new
#+CAPTION: Gnuplot to plot
#+HEADER: :var data=bash-tjp-displ-stress
#+HEADER: :var outfile="/tmp/test.png"
#+BEGIN_SRC gnuplot :results graphics
set output outfile
set xlabel 'var1'
set ylabel 'var2'
plot data u ($1 + 1):2 with lp notitle
#+END_SRC
#+CALL: gplt-tjp-febio-results-new[:results
none](outfile="/tmp/new_out.png")
I type this manually:
[[/tmp/new_out.png]]
* What I expected
To call
#+BEGIN_EXAMPLE
,#+CALL: gplt-tjp-febio-results() :file /tmp/new_out.png
#+END_EXAMPLE
and get
#+BEGIN_EXAMPLE
,#+RESULTS:
[[file:/tmp/orig-out.png]]
#+END_EXAMPLE
How do I achieve this?
* Thanks
Thank you! :D
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2017-08-25 3:26 How to call nested bash and gnuplot with babel? edgar
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