Merge pull request #120 from MobleyLab/finalize_v1.0

Finalize v1.0

Author: davidlmobley

paper/basic_training.bib

@@ -1105,7 +1105,9 @@ @article{Grossfield:2019:LivingJ.Comput.Mol.Sci.
   journal = {Living Journal of Computational Molecular Science},
   author = {Grossfield, Alan and Patrone, Paul N and Roe, Daniel R and Schultz, Andrew J and Siderius, Daniel W and Zuckerman, Daniel M},
   year = {2019},
-  pages = {24},
+  volume = {1},
+  issue = {1},
+  pages = {5067},
 }
 
 

paper/basic_training.pdf

@@ -65,6 +65,15 @@
 \corr{[email protected]}{SP}
 \corr{[email protected]}{DMZ}
 
+\orcid{Efrem Braun}{0000-0001-5379-7031}
+\orcid{Justin Gilmer}{0000-0002-6915-5591}
+\orcid{Heather B. Mayes}{0000-0002-6915-5591}
+\orcid{David L. Mobley}{0000-0002-6915-5591}
+\orcid{Jacob I. Monroe}{0000-0002-7654-2856}
+\orcid{Samarjeet Prasad}{0000-0001-8320-6482}
+\orcid{Daniel M. Zuckerman}{0000-0001-7662-2031}
+
+
 
 \blurb{This LiveCoMS document is maintained online on GitHub at
 \githubrepository; to provide feedback, suggestions, or help improve it, please
@@ -77,10 +86,11 @@
  %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
  \pubDOI{10.33011/livecoms.1.1.5957}
  \pubvolume{1}
- \pubyear{<year>}
- \articlenum{<number>}
- \datereceived{August 2, 2018}
- \dateaccepted{November 9, 2018}
+ \pubissue{1}
+ \pubyear{2019}
+ \articlenum{5957}
+ \datereceived{2 August 2018}
+ \dateaccepted{9 November 2018}
 
 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 %%% ARTICLE START
@@ -1264,6 +1274,8 @@ \section{Conclusions}
 
 Please remember that this is an updatable work, so we welcome contributions and suggestions via our GitHub issue tracker at \url{https://github.com/MobleyLab/basic_simulation_training}.
 
+\section*{Author Information}
+\makeorcid
 
 
 \nocite{*}

paper/basic_training.tex

@@ -49,6 +49,9 @@
 \newif\if@pubversion
 \DeclareOption{pubversion}{\@pubversiontrue}
 
+\newif\if@ASAPversion
+\DeclareOption{ASAPversion}{\@ASAPversiontrue}
+
 %% Linespacing.
 \newif\if@onehalfspacing
 \newif\if@doublespacing
@@ -247,6 +250,9 @@
 \newcommand{\pubvolume}[1]{%
   \appto{\@publishedvolume}{#1}{}{}
 }
+\newcommand{\pubissue}[1]{%
+  \appto{\@publishedissue}{#1}{}{}
+}
 \newcommand{\pubyear}[1]{%
   \appto{\@publishedyear}{#1}{}{}
 }
@@ -260,24 +266,42 @@
   \appto{\@publisheddateaccepted}{#1}{}{}
 }
 
+%--------------------------------------------------------
 % Footers
+% 1. Error Check for conflicting class options
 \if@pubversion
-\lfoot{\ifthenelse{\value{page}=1}
-  {\small\color{LiveCoMSMediumGrey}Received: \@publisheddatereceived \\ Accepted: \@publisheddateaccepted}
-  {~\\~}
-}%
-%\lfoot{\small\color{LiveCoMSMediumGrey}Received: \@publisheddatereceived \\
-%  Accepted: \@publisheddateaccepted}%
-\cfoot{\small\color{white} \vspace{\baselineskip} \small\color{LiveCoMSMediumGrey} \thepage\space of\space\pageref{LastPage}}%
-\rfoot{\small\color{LiveCoMSMediumGrey}\href{https://doi.org/\@publishedDOI}{https://doi.org/\@publishedDOI}\\
-  {\it Living J. Comp. Mol. Sci.} \@publishedyear, \@publishedvolume, \@publishedarticlenum }%
-\else
-\cfoot{\small\color{white} \vspace{\baselineskip} \small\color{LiveCoMSMediumGrey} \thepage\space of\space\pageref{LastPage}}%
-%\rfoot{\small\color{LiveCoMSMediumGrey}Page \thepage\space of\space\pageref{LastPage}}%
+  \if@ASAPversion
+      \ClassError{livecoms}
+      {Nope nope nope, you cannot invoke 'pubversion' and 'ASAPversion' simultaneously. Please correct the class options.}
+  \fi
+\fi
+% 2. Publication Version: put submission/acceptance dates in left footer and citation information in right footer
+%%% DWS NOTE: would be nice if the left footer was in an if A-or-B type logical statement
+\if@pubversion
+  \lfoot{\ifthenelse{\value{page}=1}
+    {\small\color{LiveCoMSMediumGrey}Received: \@publisheddatereceived \\ Accepted: \@publisheddateaccepted}
+    {~\\~}
+  }%
+  \rfoot{\small\color{LiveCoMSMediumGrey}\href{https://doi.org/\@publishedDOI}{https://doi.org/\@publishedDOI}\\
+    {\it Living J. Comp. Mol. Sci.} \@publishedyear, \@publishedvolume\nobreak\hspace{.05em}(\@publishedissue), \@publishedarticlenum
+  }%
+\fi
+% 3. ASAP Version: put submission/acceptance dates in left footer and "ASAP Version" in right footer
+\if@ASAPversion
+  \lfoot{\ifthenelse{\value{page}=1}
+    {\small\color{LiveCoMSMediumGrey}Received: \@publisheddatereceived \\ Accepted: \@publisheddateaccepted}
+    {~\\~}
+  }%
+  \rfoot{\small\color{LiveCoMSMediumGrey}\href{https://doi.org/\@publishedDOI}{https://doi.org/\@publishedDOI}\\
+    {\it Living J. Comp. Mol. Sci.} ASAP Version
+  }%
 \fi
+% 4. Page Number in center of footer
+\cfoot{\small\color{white} \vspace{\baselineskip} \small\color{LiveCoMSMediumGrey} \thepage\space of\space\pageref{LastPage}}%
 \preto{\footrule}{\color{LiveCoMSMediumGrey}}
 \renewcommand{\headrulewidth}{0pt}% % No header rule
 \renewcommand{\footrulewidth}{0.4pt}% % No footer rule
+%----------------------------------------------------------
 
 %
 % section/subsection/paragraph set-up
@@ -319,6 +343,7 @@
 \def\@deceased{}
 % Added blurb for LiveComs
 \def\@blurb{}
+\def\@orcidblock{}
 
 
 \newcommand{\corr}[2]{%
@@ -349,6 +374,16 @@
 % Added for LiveComs
 \newcommand{\blurb}[1]{\def\@blurb{#1}}
 
+\newcommand{\orcid}[2]{%
+  \ifx\empty\@orcidblock\else\appto{\@orcidblock}{\\}{}{}\fi
+  \appto{\@orcidblock}{%
+    #1:\space%
+    \ifx\empty#2\else\href{https://orcid.org/#2}{#2} \fi
+  }{}{}%
+}
+
+
+
 \reversemarginpar
 
 %
@@ -380,7 +415,7 @@
 
 %% Abstract outside frontmatter will throw an error!
 \RenewEnviron{abstract}{%
-  \ClassError{livecome}
+  \ClassError{livecoms}
   {Nope nope nope, please put the abstract inside the frontmatter environment.}
   {Please put the abstract inside the frontmatter environment.}
 }
@@ -422,6 +457,12 @@
   \vskip8pt
 }
 
+\newcommand{\makeorcid}{%
+  % \textbf{*For correspondence:\\}  \@correspondence\par
+  % \textbf{ORCID:\\}  \@correspondence\par
+  \textbf{ORCID:\\}  \@orcidblock\par
+}
+
 %% Insert a grey line to separate floats from main text
 \newcommand{\topfigrule}{\vskip8pt\noindent{\rule{\linewidth}{1pt}}}
 \newcommand{\botfigrule}{\noindent{\rule{\linewidth}{1pt}}\vskip8pt}