Allow for glossary in texnote. Implies ruuning makeglosaries in latex_tools and changes in template files.

papers/plugs/texnote/default_body.tex

@@ -9,7 +9,7 @@
 %}
 %HEADER{
 %This part is the header, you can modify it as you wish. It will be removed when compiling higher level notes 
-%TITLE, AUTHOR, YEAR, ABSTRACT will be automatyically replaced with respect to the associated bibfile thanks to the \autofill{*FIELD*}{} marker.
+%TITLE, AUTHOR, YEAR, ABSTRACT will be automatically replaced with respect to the associated bibfile thanks to the \autofill{*FIELD*}{} marker.
 \begin{center}
     \Large{\textbf{\autofill{TITLE}{Title not found}}} \\ [0.2cm]
     \small{\textsc{\autofill{AUTHOR}{Author(s) not found}}} \\ [0.2cm]
@@ -19,7 +19,7 @@
     \autofill{ABSTRACT}{Abstract not found}
 \end{abstract}
 %Write your notes below
-%Do not use \section{} or \subsection{} as they may be source of problems when concatenating notes.
+%Do not use \section{} or \subsection{} as they may be source of problems when concatenating notes. Use \paragraph{} instead.
 %}
 
 
@@ -34,5 +34,8 @@
 %[texnote]
 %bib_style = plain
 \bibliography{INFO} %The bibliography location is automatically filled
+%The glossary style is default
+\printglossary
+%You can add a new glossary entry using \dictentry{'name'}{'description'} (see style file). This will automatically add a new reference and display it in the glossary even if never referenced (using \gls{'name'}).
 \end{document}
 %}

papers/plugs/texnote/default_style.sty

@@ -1,4 +1,11 @@
 %DO_NOT_MODIFY{
 %Dummy command used as marker for the autofill
 \newcommand{\autofill}[2]{#2}
+%command for easy glossary, requires to run: 'makeglossaries filename'
+\usepackage[nonumberlist]{glossaries}
+\newcommand{\dictentry}[2]{%
+  \newglossaryentry{#1}{name=#1,description={#2}}%
+  \glslink{#1}{}%
+}
+\makeglossaries
 %}

papers/plugs/texnote/latex_tools.py

@@ -30,6 +30,7 @@ def full_compile(full_path_to_file, verbose=False):
     filename, extension = os.path.splitext(full_path_to_file)
     run_pdflatex(filename, stdout=FNULL)
     run_bibtex(filename, stdout=FNULL)
+    run_makeglossaries(filename, stdout=FNULL)
     run_pdflatex(filename, stdout=FNULL, nb_time=3)
 
 
@@ -50,3 +51,6 @@ def run_pdflatex(full_path_to_file, stdout=None, nb_time=1):
 
 def run_bibtex(full_path_to_file, stdout=None, nb_time=1):
     run_command('bibtex', full_path_to_file, stdout, nb_time)
+
+def run_makeglossaries(full_path_to_file, stdout=None, nb_time=1):
+    run_command('makeglossaries', full_path_to_file, stdout, nb_time)

papers/plugs/texnote/texnote.py

@@ -125,8 +125,11 @@ class TexnotePlugin(PapersPlugin):
     def _texfile(self, citekey):
         return os.path.join(DIR, citekey + '.tex')
 
+    def _exist_texfile(self, citekey):
+        return files.check_file(self._texfile(citekey))
+
     def _ensure_texfile(self, citekey):
-        if not files.check_file(self._texfile(citekey)):
+        if not self._exist_texfile(citekey):
             shutil.copy(TPL_BODY, self._texfile(citekey))
 
     def get_bib_style(self):
@@ -189,6 +192,12 @@ class TexnotePlugin(PapersPlugin):
             os.remove(self.get_texfile(citekey))
 
     def rename(self, old_citekey, new_citekey, overwrite=False):
+        if self._exist_texfile(old_citekey):
+            if not overwrite and self._exist_texfile(new_citekey):
+                ui = get_ui()
+                are_you_sure = 'Are you sure you want to delete [{}]'.format(citekey)
+                sure = ui.input_yn(question=are_you_sure, default='n')
+            if overwrite or sure:
                 shutil.move(self.get_texfile(old_citekey), self.get_texfile(new_citekey))
 
     def generate_bib(self):