\documentclass[a4paper,12pt,twoside]{report}

\usepackage{subcaption}
\usepackage{rotating}
\usepackage{graphicx}
\usepackage{amssymb}
\usepackage{amsmath}
\usepackage{mathtools}
\usepackage{caption}
\usepackage[toc,page]{appendix}
\usepackage{algorithm}
\usepackage{algorithmic}
\usepackage{verbatim}
\usepackage{color}
\usepackage{amsthm}
\usepackage{setspace}
\usepackage[abs]{overpic}
\usepackage[linktocpage=true,colorlinks,citecolor=blue,pagebackref=true]{hyperref}%
\usepackage[numbers]{natbib}%nonamebreak,numbers,
\usepackage{listings}
\usepackage[top=3.5cm,right=3.5cm,bottom=2.5cm,left=2.5cm]{geometry}
\usepackage{multicol}
%khodam fancy header gozashtam
\captionsetup{belowskip=0pt,aboveskip=0pt}

\usepackage[extrafootnotefeatures]{xepersian}
\settextfont[Scale=1.2]{IRNazanin}%{XB Zar}%{B Lotus}%{XB Zar}%{B Nazanin}
%\setdigitfont[Scale=1.0]{Times New Roman}
\setdigitfont[Scale=1.0]{IRNazanin}
\setlatintextfont[Scale=1.0]{Times New Roman}
\defpersianfont\nastaliq[Scale=4]{IranNastaliq}
\renewcommand{\labelitemi}{$\bullet$} % خودم اضافه کردم

%\settextfont[Scale=1.05]{XB Zar}
%\setdigitfont[Scale=1.2]{Liberation Serif}
%\setlatintextfont[Scale=1.1]{Liberation Serif}

%\defpersianfont\nastaliq[Scale=1.2]{{B Nazanin}
\DefaultMathsDigits

% ======== Set Line Spacing:
\makeatletter
\newcommand*{\Computebaselinestretch}[1]{%
	\strip@pt\dimexpr\number\numexpr\number\dimexpr#1\relax*65536/\number\dimexpr\baselineskip\relax\relax sp\relax
}
\makeatother
\linespread{\Computebaselinestretch{1.00cm}}
%\linespread{2}

% ======== Remove Indentation:
%\setlength{\parindent}{0pt} 

% ======== Math Theorem Deffinition:
%\theoremstyle{plain}
%\newtheorem{theorem}{قضیه}
%\newtheorem{lemma}{لم}
%\newtheorem{proposition}{گزاره}
%\newtheorem{property}{ویژگی}
%\theoremstyle{definition}
%\newtheorem{definition}{تعریف}
%\newtheorem{example}{مثال}
%\newtheorem{prob}{سوال}
%\theoremstyle{remark}
%\newtheorem{corollary}{نتیجه}
%\newtheorem{remark}{ملاحظه}


% ======= Mark between chapter-section numbers:
\SepMark{-}

\begin{document}
	\pagenumbering{alph}
	\input{fa_title}
	\input{P_besmelah}
	\input{P_Acceptance}
	\input{P_Esalateasar}
	\input{P_donate}
 \input{P_acknowledgementpage}
	\input{Abstract}

	\tableofcontents
	\listoffigures‎‎
	\listoftables
	\newpage
	\pagenumbering{arabic}
	
	% ========== Chapters' beginning here:
	\include{Ch1_Introduction}
	\include{Ch4_ProbInv}
	\include{Ch3_RPM}
		\include{Ch2_Azadegan}
\include{Ch5_2Dsyn}
\include{Ch6_real}
\include{Ch7_conc}

	
	% ========== Appendices:
	\appendix
	\include{Apndx1}
	\include{Apndx2}
	\include{Apndx3}
		\include{Apndx4}
				\include{Apndx5}
	
	% ====== Bibliography:
	\renewcommand\bibname{مراجع}

%	\setLTRbibitems
%		\bibliographystyle{chicago-fa}
 \bibliographystyle{plain-fa}
	\bibliography{Reference} 
	\newpage
	\input{Abstract_en}
	\input{En_title}
	
\end{document}