%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% nova/fct/nova-fct-cbbi-defaults.clo
%% NOVA thesis document template
%%
%% This work is licensed under the
%% The LaTeX project public license (LPPL), version 1.3c
%% To view a copy of this license, visit
%% https://www.latex-project.org/lppl/lppl-1-3c/
%%
%% Authors / Contributors:
%%      - João Lourenço <joao.lourenco@fct.unl.pt>
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\typeout{NT FILE schools/nova/fct/nova-fct-cbbi-defaults.clo}%


%%=======================================================================
%% METADATA & GLOBAL PROPERTIES
%%=======================================================================

% All LaTeX engines (pdfLaTeX, XeLaTeX, LuaLaTeX) are accepted
\AddValidProcessor{nova/fct/cbbi}{pdf,lua,xe}
\AddValidDegree{nova/fct/cbbi}{msc}

% NOVA/FCT
\NTOptNewValue{nova/fct/company/logo}{}
\NTOptNewValue{nova/fct/company/name}{}

% NOVA FCT specific customization
\ntsetup{doctype=msc}
\ntsetup{print/frontpage=true}
\openany


%%=======================================================================
%% COLORS
%%=======================================================================

\definecolor{msccbbigray}{RGB}{110,110,110}


%%=======================================================================
%% STRINGS (UNIVERSITY & SCHOOL)
%%=======================================================================

% Faculty / School
\SetSchool*(pt)={Faculdade de Ciências e Tecnologia}
\SetSchool*(en)={NOVA School of Science and Technology}
\SetSchool*(fr)={NOVA School of Science and Technology}
\SetSchool*(it)={NOVA School of Science and Technology}

% Logos
\SetSchool*(logo,pt)={nova-fct-logo-pt}
\SetSchool*(logo,neg,pt)={nova-fct-logo-negative-pt}
\SetSchool*(logo,en)={nova-fct-logo-en}
\SetSchool*(logo,neg,en)={nova-fct-logo-negative-en}
\SetSchool*(logo)={\GetSchool(logo,\@LANG@COVER)}
\SetSchool*(logo,neg)={\GetSchool(logo,neg,\@LANG@COVER)}

\ntdegreename(pt){Biologia Computacional\\\& Bioinformática}
\ntdegreename(en){Computational Biology\\\& Bioinformatics}

\SetSpecializationString*(en)={SPECIALIZATION}
\SetSpecializationString*(pt)={ESPECIALIZAÇÃO}

\SetDissertationPlan*(mscplan,en)={Dissertation Plan}
\SetDissertationPlan*(mscplan,pt)={Plano de Dissertação}


%%=======================================================================
%% COMMITTEE
%%=======================================================================

\SetCommitteeOrder*()={c,r,a,ca,m}%


%%=======================================================================
%% FONTS
%%=======================================================================

% Loading of fonts must be delayed until class "novathesis" is loaded
\AtEndPreamble{%
  % [tabular,lining]
  \RequirePackage[]{montserrat}
  \ifxeorlua{\setsansfont{montserrat}}{}
}


%%=======================================================================
%% LAYOUT (MARGINS)
%%=======================================================================

% Set margins for "normal" pages
\SetMargin*(screen,top)={3.5cm}
\SetMargin*(screen,bottom)={2.5cm}
\SetMargin*(screen,left)={3.0cm}
\SetMargin*(screen,right)={3.0cm}
\SetMargin*(paper,top)={3.5cm}
\SetMargin*(paper,bottom)={2.5cm}
\SetMargin*(paper,left)={3.0cm}
\SetMargin*(paper,right)={3.0cm}

% Set margins for cover pages
\SetMargin*(cover,top)={12.0cm}
\SetMargin*(cover,bottom)={6.3cm}
\SetMargin*(cover,2-1,top)={6.6cm}
\SetMargin*(cover,2-1,bottom)={1.5cm}
\SetMargin*(cover,left)={1.7cm}
\SetMargin*(cover,right)={2.0cm}


%%=======================================================================
%% SPINE
%%=======================================================================

\SetSpine*(order)={date,tas,logo}
\SetSpine*(tab,spec)={{@{}l@{}}}

\SetSpine(date)={2025}
\SetSpine(date,font)={\fontsize{10}{10}\selectfont\bfseries}
\IfMemVoidT{Spine}{box,date,len}{\MemSet*{Spine}{box,date,len}{1.2cm}}
\SetSpine(box,date,angle)={270}

\SetSpine(tas)={\MakeUppercase{\GetDocTitle(\@LANG@COVER,main)}}
\SetSpine(tas,1)={~\\[4pt]%
               \fontsize{8}{8}\selectfont%
               \MakeUppercase{\GetDocTitle(\@LANG@COVER,main)}\\[5.5pt]}
\SetSpine(tas,2)={\fontsize{11}{6}\selectfont\bfseries%
               \GetDocAuthor(name,short)\\[-0.5pt]}
\SetSpine(tas,3)={\fontsize{8.5}{6}\selectfont%
               \MakeUppercase{\GetDegreeNamePrefix(\@DOCTYPE,\@LANG@COVER)} \bfseries\GetMajorField(\@LANG@COVER)\\[-3pt]}
\SetSpine(tas,4)={\fontsize{5.4}{5}\selectfont%
               \textbf{\MakeUppercase{\GetSpecializationString(\@LANG@COVER)}}
               \fontsize{7}{5}\selectfont\GetMinorField(\@LANG@COVER)\\[-5pt]}

\SetSpine*(box,tas,len)={23.3cm}
\SetSpine*(box,tas,align)={l}
\SetSpine*(box,tas,margin,left)={0pt}
\SetSpine*(box,tas,margin,right)={2pt}
\SetSpine*(box,tas,angle)={0}

\SetSpine*(logo,\@DOCTYPE)={\GetUniversity(logo2)}
\SetSpine*(box,logo,len)={2.7cm}
\SetSpine*(box,logo,scale)={1.4}
\SetSpine(box,logo,margin,left)={10mm}
\SetSpine(box,logo,margin,right)={10mm}
\SetSpine(box,logo,margin,top)={1mm}
\SetSpine(box,logo,margin,bottom)={1mm}
\SetSpine(box,logo,margin,sep)={4mm}

\IfMemVoidT{Spine}{margin,right}{\MemSet{Spine}{margin,right}{0.0cm}}

\SpineSetup[
]{
  width = 3cm,
  box/logo/bg/image = {\GetSchool(logo)},
  % debug,
}

%%=======================================================================
%% COVER PAGE SETUP (BACKGROUNDS)
%%=======================================================================

% MSc cover
\IfMemVoidT{ThesisCover}{msc,1-1,image}{\MemSet*{ThesisCover}{msc,1-1,image}{nova-fct-cover-cbbi-front}}
\IfMemVoidT{ThesisCover}{msc,N-2,image}{\MemSet*{ThesisCover}{msc,N-2,image}{nova-fct-cover-cbbi-back}}
\IfMemVoidT{ThesisCover}{msc,spine,image}{\MemSet*{ThesisCover}{msc,spine,image}{nova-fct-spine-cbbi}}


%%=======================================================================
%% UTILITIES & HOOKS
%%=======================================================================

% Same implementation as nova-fct-defaults.clo — see comments there.
\newif\if@nt@hasbreak

\newcommand{\printdwithvspace}[2][2pt]{%
  % ---- Phase 1: probe — execute #2 in a discard box; \\ just sets a flag ----
  \@nt@hasbreakfalse
  \setbox\z@\hbox{%
    \def\\{\global\@nt@hasbreaktrue}%
    #2%
  }%
  % ---- Phase 2: typeset for real ---
  \if@nt@hasbreak
    % \\ found: redefine to append [#1] to each line break, then typeset
    \begingroup
      \let\@nt@origcr\\%
      \def\\{\@nt@origcr[#1]}%
      #2%
    \endgroup
  \else
    % No \\ found: prepend \\[#1] before the content
    \\[#1]#2%
  \fi
}

\SetThesisCover(textfont)={\sffamily}
% \NTAddToHook{cover/text/pre}{%
%   \sffamily%
% }


%%=======================================================================
%% COVER 1 ELEMENTS
%%=======================================================================

% University and school logo
\ntaddtocover[tikz]{1-1}{%
  \node[anchor=north west] at ($(current page.north west) + (18.75mm,-23.75mm)$)
    {\includegraphics[width=43mm]{nova-logo}};%
}

\ntaddtocover[tikz]{1-1}{%
  \node[anchor=north west] at ($(current page.north west) + (13mm,-76mm)$)
    {\fontsize{52}{52}\selectfont\textbf{\sffamily \textcolor{msccbbigray}{MSc}CBBi}};%
}

\ntaddtocover[tikz]{1-1}{%
  \node[anchor=north west] at ($(current page.north west) + (14.6mm,-97.25mm)$)
    {\fontsize{16.25}{14.5}\selectfont\sffamily%
      \makecell[tl]{
      \MakeUppercase{\GetDegreeNamePrefix(\@DOCTYPE,\@LANG@COVER)}\\
      \let\oldnewline\\%
      \renewcommand{\\}{\oldnewline\bfseries}%
      \bfseries%
      \MakeUppercase{\GetMajorField(\@LANG@COVER)}%
      }%
    };%
}

\ntaddtocover[tikz]{1-1}{%
  \def\Y{23.75mm}
  \node[anchor=west] at ($(current page.south west) + (13.75mm,\Y)$)
    {\includegraphics[width=11.75mm]{nova-insignia-bw}};%
  \draw[thick] ($(current page.south west) + (28mm,\Y-11.75mm/2)$) -- ++(0mm,11.75mm);%
  \node[anchor=west] at ($(current page.south west) + (29.0mm,\Y)$)
    {\includegraphics[width=39.0mm]{nova-ihmt-logo-bw}};%
  \node[anchor=west,yshift=-2mm] at ($(current page.south west) + (75.0mm,\Y)$)
    {\includegraphics[width=25.0mm]{nova-fct-logo-bw-en}};%
  \node[anchor=west,yshift=-2mm] at ($(current page.south west) + (105.0mm,\Y)$)
    {\includegraphics[width=25.0mm]{nova-nms-logo-bw}};%
  \node[anchor=west,yshift=-2mm] at ($(current page.south west) + (136.0mm,\Y)$)
    {\includegraphics[width=15.0mm]{nova-ims-logo-bw}};%
  \node[anchor=west,yshift=-1mm] at ($(current page.south west) + (153.0mm,\Y)$)
    {\includegraphics[width=48.0mm]{nova-ihmt-logo-bw}};%
}

% Specialization
\ntaddtocover[halign=l,hspace=-1mm,valign=t]{1-1}{%
  \fontsize{11}{11}\selectfont%
  {\IfMemVoidTF{Specialization}{\@LANG@COVER}
    {~}
    {\StrCut{\GetSpecializationString(\@LANG@COVER)}{ }\@SPCZL\@dummy%
     \MakeUppercase{\textbf{\@SPCZL}} \MakeUppercase{\GetMinorField(\@LANG@COVER)}}}%
}

% Title of Dissertation (PhD) / The author name (MSc)
\ntaddtocover[halign=l,height=3.0cm,vspace=4.1mm,valign=c]{1-1}{%
    \fontsize{20.5}{17}\selectfont%
    \textbf{\MakeUppercase{\GetDocAuthor(name)}}\\[2mm]%
    \fontsize{17}{17}\selectfont%
    \GetDocAuthor(degree,\@LANG@COVER)%
}

% The author name (PhD) / Title of Dissertation (MSc)
\ntaddtocover[vspace=6mm,halign=l,valign=t]{1-1}{%
    \fontsize{26}{26}\selectfont\bfseries%
    \textbf{\MakeUppercase{\GetDocTitle(\@LANG@COVER,main)}}%
}

% Degrere name, Specialization, Date
\ntaddtocover[vfill=1,halign=l]{1-1}{%
  \fontsize{18}{17}\selectfont%
  \iftoggle{/novathesis/print/timestamp}
    {\ifdocworking{\emph{\color{blue}\textbf{Draft:} \today}}%
                  {\PrintDateISO{\GetDocDate(submission,year)-\GetDocDate(submission,month)}}}%
    {\PrintDateISO{\GetDocDate(submission,year)-\GetDocDate(submission,month)}}%
}


%%=======================================================================
%% COVER 2 ELEMENTS
%%=======================================================================

\ntaddtocover[tikz]{2-1}{%
  \node[anchor=center] at ($(current page.north west) + (20mm,-20mm)$)
    {\includegraphics[width=21mm]{\expanded{\GetUniversity(logo)}}};%
  \draw[thick] ($(current page.north west) + (3.5cm,-1cm)$) -- ++(0cm,-2cm);%
  \node[anchor=west] at ($(current page.north west) + (40mm,-19mm)$)
    {\includegraphics[width=35.3mm]{\expanded{\GetSchool(logo)}}};%
  \draw[thick] ($(current page.north west) + (1cm,-4.1cm)$) -- ++(\paperwidth-2cm,0cm);%
  \node[anchor=north west] at ($(current page.north west) + (96.45mm,-11.4mm)$)
    {\fontsize{14}{14}\sffamily\makecell[tl]{\MakeUppercase{\GetDepartmentOfString(\@LANG@COVER)}
      \printdwithvspace{\MakeUppercase{\GetDepartment(\@LANG@COVER)}}}};%
}

% Company logo
\ntaddtocover[tikz]{1-1,2-1}{%
  \ifoptionvoid{/novathesis/nova/fct/company/logo}{}{%
    \ifoptionequal{/novathesis/doctype}{bsc}{%
      \ifoptionequal{/novathesis/schoolgiven}{nova/fct/di-adc}{%
        \node[anchor=east] at ($(current page.north east) + (-1cm,-2cm)$)
              {\includegraphics[width=40mm,height=21mm,keepaspectratio]
                               {\option{/novathesis/nova/fct/company/logo}}};%
      }{}%
    }{}%
  }%
}

% Title of Dissertation (PhD)
\ntaddtocover[halign=l]{2-1}{%
  \fontsize{17}{17}\selectfont%
  \textbf{\MakeUppercase{\GetDocTitle(\@LANG@COVER,main)}}%
  \IfMemVoidF{DocTitle}{\@LANG@COVER,sub}{%
    \\[4mm]%
    \fontsize{12}{12}\selectfont%
    \textbf{\MakeUppercase{\GetDocTitle(\@LANG@COVER,sub)}}%
  }{}%
}

% The author name
\ntaddtocover[vfill=1,halign=l]{2-1}{%
  \fontsize{14}{14}\selectfont%
  \textbf{\MakeUppercase{\GetDocAuthor(name)}}\\[2mm]%
  \fontsize{14}{14}\selectfont%
  \GetDocAuthor(degree,\@LANG@COVER)%
}

% The advisers
\ntaddtocover[vfill=2,halign=l]{2-1}{%
  \MemSet{adviserstringfont}{}{\bfseries}%
  \fontsize{11}{11}\selectfont%
  \ntprintpersons{0.9}{2}{adviser}{\GetAdviserOrder()}%
}

% The committee
\ntaddtocover[vfill=1,hspace=3.5cm,halign=l]{2-1}{%
  \MemSet{committeetitlestringfont}{}{\bfseries}%
  \MemSet{committeestringfont}{}{\bfseries}%
  \fontsize{10}{10}\selectfont%
  \ntprintpersons{0.9}{2}{committee}{\GetCommitteeOrder()}%
}

% Date
\ntaddtocover[vfill=1,halign=l]{2-1}{%
  \fontsize{10}{10}\selectfont%
  \ifmaindoc{}{\GetDissertationPlan(\@DOCTYPE,\@LANG@COVER)\\[1pt]}%
  \MakeUppercase{\GetDegreeName(\@LANG@COVER)}%
  {\IfMemVoidF{Specialization}{\@LANG@COVER}{%
  \fontsize{8}{9}\selectfont
  \\\MakeUppercase{\GetSpecialization(\@LANG@COVER)}}{}}%
  \\[1.25ex]%
  \GetUniversity(\@LANG@COVER)\\[1pt]%
  \iftoggle{/novathesis/print/timestamp}{%
    \ifdocworking{\emph{\color{blue}\textbf{Draft:} \today}}%
                 {\PrintDateISO{\GetDocDate(submission,year)-\GetDocDate(submission,month)}}%
  }{\PrintDateISO{\GetDocDate(submission,year)-\GetDocDate(submission,month)}}%
}


%%=======================================================================
%% BACK COVER ELEMENTS
%%=======================================================================

\ntaddtocover[tikz]{N-2}{%
  \node[anchor=north west] at ($(current page.north west) + (19mm,-221mm)$)
    {\includegraphics[width=88mm]{nova-logo-grey}};%
}

% Print sponsor logos
\ntaddtocover[vfill=1, halign=l]{N-2}{%
  \foreach \myi in {1, ..., 9} {%
    \IfMemVoidF{Sponsor}{\@LANG@COVER,\myi,logo}{%
      \GetSponsor(\@LANG@COVER,\myi,logo)\qquad%
    }{}%
  }%
}