Initial import.

demo-document.lyx

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+#LyX 2.3 created this file. For more info see http://www.lyx.org/
+\lyxformat 544
+\begin_document
+\begin_header
+\save_transient_properties true
+\origin unavailable
+\textclass article
+\begin_preamble
+\usepackage[gobble=auto]{pythontex}
+\end_preamble
+\use_default_options true
+\maintain_unincluded_children false
+\language english
+\language_package default
+\inputencoding auto
+\fontencoding global
+\font_roman "default" "default"
+\font_sans "default" "default"
+\font_typewriter "default" "default"
+\font_math "auto" "auto"
+\font_default_family default
+\use_non_tex_fonts false
+\font_sc false
+\font_osf false
+\font_sf_scale 100 100
+\font_tt_scale 100 100
+\use_microtype false
+\use_dash_ligatures true
+\graphics default
+\default_output_format pdf2
+\output_sync 0
+\bibtex_command default
+\index_command default
+\paperfontsize default
+\spacing single
+\use_hyperref true
+\pdf_title "pythontex-wrapper for lyx demo document"
+\pdf_author "Michael G. Hansen"
+\pdf_bookmarks true
+\pdf_bookmarksnumbered false
+\pdf_bookmarksopen false
+\pdf_bookmarksopenlevel 1
+\pdf_breaklinks false
+\pdf_pdfborder false
+\pdf_colorlinks false
+\pdf_backref false
+\pdf_pdfusetitle true
+\papersize default
+\use_geometry false
+\use_package amsmath 1
+\use_package amssymb 1
+\use_package cancel 1
+\use_package esint 1
+\use_package mathdots 1
+\use_package mathtools 1
+\use_package mhchem 1
+\use_package stackrel 1
+\use_package stmaryrd 1
+\use_package undertilde 1
+\cite_engine basic
+\cite_engine_type default
+\biblio_style plain
+\use_bibtopic false
+\use_indices false
+\paperorientation portrait
+\suppress_date false
+\justification true
+\use_refstyle 1
+\use_minted 0
+\index Index
+\shortcut idx
+\color #008000
+\end_index
+\secnumdepth 3
+\tocdepth 3
+\paragraph_separation indent
+\paragraph_indentation default
+\is_math_indent 0
+\math_numbering_side default
+\quotes_style english
+\dynamic_quotes 0
+\papercolumns 1
+\papersides 1
+\paperpagestyle default
+\tracking_changes false
+\output_changes false
+\html_math_output 0
+\html_css_as_file 0
+\html_be_strict false
+\end_header
+
+\begin_body
+
+\begin_layout Title
+pythontex-wrapper for lyx demo document
+\end_layout
+
+\begin_layout Itemize
+Now let's call some Python code:
+\begin_inset ERT
+status open
+
+\begin_layout Plain Layout
+
+
+\backslash
+begin{pycode}[sessionA]
+\end_layout
+
+\begin_layout Plain Layout
+
+import sys
+\end_layout
+
+\begin_layout Plain Layout
+
+print(
+\begin_inset Quotes eld
+\end_inset
+
+
+\backslash
+
+\backslash
+begin{itemize}
+\begin_inset Quotes erd
+\end_inset
+
+)
+\end_layout
+
+\begin_layout Plain Layout
+
+print("
+\backslash
+
+\backslash
+item Running Python works.
+\backslash
+n")
+\end_layout
+
+\begin_layout Plain Layout
+
+print(
+\begin_inset Quotes eld
+\end_inset
+
+
+\backslash
+
+\backslash
+item Python version: 
+\begin_inset Quotes eld
+\end_inset
+
++sys.version)
+\end_layout
+
+\begin_layout Plain Layout
+
+print(
+\begin_inset Quotes eld
+\end_inset
+
+
+\backslash
+
+\backslash
+end{itemize}
+\begin_inset Quotes erd
+\end_inset
+
+)
+\end_layout
+
+\begin_layout Plain Layout
+
+
+\backslash
+end{pycode}
+\end_layout
+
+\end_inset
+
+
+\end_layout
+
+\begin_layout Itemize
+We can also use bibtex to cite something, for example IPython 
+\begin_inset CommandInset citation
+LatexCommand cite
+key "Perez2007IPython"
+literal "false"
+
+\end_inset
+
+.
+\end_layout
+
+\begin_layout Standard
+\begin_inset CommandInset bibtex
+LatexCommand bibtex
+btprint "btPrintCited"
+bibfiles "references"
+options "plain"
+
+\end_inset
+
+
+\end_layout
+
+\end_body
+\end_document

pythontexwrapper.sh

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+#!/bin/bash
+# SPDX-License-Identifier: CC0-1.0
+
+# Wrapper around pdflatex to use pythontex in lyx
+# Author: Michael G. Hansen
+
+# @TODO Make these configurable either via command-line or
+# by changing the executable name
+latexcommand="pdflatex"
+pythontexcommand="pythontex3"
+
+if [ "$1" = "--help" ] || [ "$1" = "-h" ] ; then
+    echo "pythontex-wrapper V0.1, licensed CC0-1.0"
+    echo "Wrapper around ${latexcommand} for to use ${pythontexcommand} in lyx."
+    echo "See source code for details."
+    
+    exit 0
+fi
+
+# print some debug information
+echo "pythontex-wrapper.sh"
+echo "arguments:" $@
+logfilename=`basename $1 .tex`.log
+echo "Log file: " ${logfilename}
+echo "Working directory: " `pwd`
+echo "Using latex command: " ${latexcommand}
+echo "Using pythontex command: " ${pythontexcommand}
+
+# compile using latex
+if ${latexcommand} $@ ; then
+    # compilation in latex worked, run pythontex3
+    if ${pythontexcommand} $1 ; then
+        # pythontex worked, run latex again
+        if ${latexcommand} $@ ; then
+            # compilation in latex worked
+            exit 0
+        else
+            # compilation using latex failed
+            exit 1
+        fi
+    else
+        # running pythontex failed
+        # lyx expects LaTeX error messages in the log file
+        # Add a fake latex error message which lyx understands
+        echo "! Undefined control sequence." >>${logfilename}
+        echo "l.17 \\pythontexError" >>${logfilename}
+        echo "\\Actually there is a pythontex error, see complete log for details." >>${logfilename}
+        
+        exit 1
+    fi
+else
+    # compilation using latex failed
+    exit 1
+fi

references.bib

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+@ARTICLE{Perez2007IPython,
+  author    = {P\'erez, Fernando and Granger, Brian E.},
+  title     = {{IP}ython: a System for Interactive Scientific Computing},
+  journal   = {Computing in Science and Engineering},
+  volume    = {9},
+  number    = {3},
+  pages     = {21--29},
+  month     = may,
+  year      = 2007,
+  url       = "https://ipython.org",
+  ISSN      = "1521-9615",
+  doi       = {10.1109/MCSE.2007.53},
+  publisher = {IEEE Computer Society}
+}
+