\documentclass[12pt]{article} \usepackage[T1]{fontenc} \usepackage[utf8]{inputenc} \usepackage{amsfonts,amssymb, latexsym, amsmath, amsthm,mathrsfs, verbatim,geometry} \usepackage{varioref} \usepackage{xr-hyper} \usepackage[colorlinks]{hyperref} \usepackage{cleveref} \newtheorem{thm}{Theorem} \newtheorem{defn}{Definition} \newtheorem{lem}{Lemma} \newtheorem{cor}{Corollary} \newtheorem{prop}{Propostion} \usepackage{equation} \begin{document} \section{File 1Introduction} \label{sec:introduction} (\ref{eq:main:1}) This is the external file New test \begin{equation} \label{eq:file1:1} \int f dx \end{equation} \begin{subequations} \label{E:EULERPOISSON} \begin{alignat}{2} \partial_t\rho + \text{div}\, (\rho \mathbf{u})& = 0 &&\ \text{ in } \ B(t)\,;\label{E:CONTINUITYEP}\\ \rho\left(\partial_t \mathbf{u}+ ( \mathbf{u}\cdot\nabla) \mathbf{u}\right) +\nabla p &=-\rho \nabla\Phi&&\ \text{ in } \ B(t)\,;\label{E:VELOCITYEP}\\ \Delta \Phi = 4\pi c\,\rho, \ \lim_{|x|\to\infty}\Phi(t,x) & = 0&& \ \text{ in } \ {\mathbb R}^3 \,; \label{E:POISSON}\\ %\lim_{|x|\to\infty}\Phi(t,x) & = 0; && \label{E:POISSONBOUNDARY}\\ p&=0&& \ \text{ on } \ \partial B(t) \,;\label{E:VACUUMEP} \\ \mathcal{V}_{\partial B(t)}&= \mathbf{u}\cdot \mathbf{n}(t) && \ \text{ on } \ \partial B(t)\,;\label{E:VELOCITYBDRYEP}\\ (\rho(0,\cdot), \mathbf{u}(0,\cdot))=(\rho_0, \mathbf{u}_0)\,, & \ B(0)=B_0&&\,.\label{E:INITIALEP} \end{alignat} \end{subequations} \end{document}