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communication/Bioinformatics/jflow_BIOINF.tex

@@ -29,7 +29,7 @@ web portals in which they can upload and analyze their files. Providing such
 tools requires to mask the complexity induced by the needed High Performance
 Computing (HPC) environment. The connexion between interface and computing
 infrastructure is usually specific to each portal. With Jflow, we introduce
-a Workflow Management System (WMS), composed of Jquery plug-ins which can easily
+a Workflow Management System (WMS), composed of jQuery plug-ins which can easily
 be
 embedded in any web application and a Python library providing all requested
 features to setup, run and monitor workflows.
@@ -65,13 +65,13 @@ but they do not provide a user interface, enable component and workflow
 definition or check file formats.
 
 To our knowledge, Jflow, presented in this article, is the only WMS designed to
-be embedded in any web application, thanks to its organization as five Jquery
+be embedded in any web application, thanks to its organization as five jQuery
 (http://jquery.com/) plug-ins.
 
 
 \section{Methods}
 
-Jflow user interface gathers five Jquery plug-ins providing user oriented views.
+Jflow user interface gathers five jQuery plug-ins providing user oriented views.
 
 \begin{itemize}
   \item \textit{availablewf} lists all runnable workflows accessible to users,
@@ -85,12 +85,12 @@ Jflow user interface gathers five Jquery plug-ins providing user oriented views.
   plug-in (Lopes et al., 2010).
 \end{itemize}
 
-The plug ins give access to multiple communication methods and events. They
+The plug-ins give access to multiple communication methods and events. They
 interact with the server side through Jflow's REST API, running under a cherrypy
 (http://www.cherrypy.org/) web server. The included server uses the JSONP
 communication technique enabling cross-domain requests. 
 
-To be available from the different Jquery plug-ins, the workflows have to be
+To be available from the different jQuery plug-ins, the workflows have to be
 implemented using the Jflow API. A Jflow component is in charge of an execution
 step. Adding a component to the system requires to write a Python
 \textit{Component} subclass. In Jflow, different solutions are available to ease
@@ -153,7 +153,7 @@ launch each sample processing.
 	\caption{\textbf{Jflow integration:} (a) A piece of the NG6 HTML code source in
 	which is positioned an empty div to build the \textit{activewf} plug-in
 and a
-	modal box for the \textit{wfstatus} plug-in. (b) The Jquery code in
+	modal box for the \textit{wfstatus} plug-in. (b) The jQuery code in
 charge to
 	build Jflow plug-ins and manage user action. When the
 \textit{select.activewf}