From b2cecaeec1dd5f384955486e83e3fb644069dda1 Mon Sep 17 00:00:00 2001
From: Olivier Langella <olivier.langella@u-psud.fr>
Date: Fri, 6 Nov 2020 16:00:06 +0100
Subject: [PATCH] docbook file to generate UNIX manpage

---
 doc/xtpcpp.xml | 96 ++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 96 insertions(+)
 create mode 100644 doc/xtpcpp.xml

diff --git a/doc/xtpcpp.xml b/doc/xtpcpp.xml
new file mode 100644
index 00000000..4a1a5a8e
--- /dev/null
+++ b/doc/xtpcpp.xml
@@ -0,0 +1,96 @@
+<?xml version="1.0"?>
+<!DOCTYPE refentry PUBLIC "-//OASIS//DTD DocBook V4.1//EN"
+[
+<!ENTITY progname "xtpcpp">
+<!ENTITY progName "xtpcpp">
+]>
+
+<refentry>
+
+	<refentryinfo>
+		<date>2020 november 6</date>
+	</refentryinfo>
+
+	<refmeta>
+		<refentrytitle>
+			<application>&progName;</application>
+		</refentrytitle>
+		<manvolnum>1</manvolnum>
+		<refmiscinfo>&progName; proteomic software for peptides and proteins identification and quantification</refmiscinfo>
+	</refmeta>
+
+	<refnamediv>
+		<refname>
+			<application>&progName;</application>
+		</refname>
+
+		<refpurpose>
+			Open xtpcpp project file (.xpip extensions)
+		</refpurpose>
+	</refnamediv>
+
+	<refsynopsisdiv>
+
+		<cmdsynopsis>
+			<command>&progname;</command>
+			<arg><option><replaceable class="parameter">options</replaceable></option></arg>
+			<arg><option><replaceable class="parameter">filename ...</replaceable></option></arg>
+		</cmdsynopsis>
+
+	</refsynopsisdiv>
+
+	<refsect1>
+		<title>DESCRIPTION</title>
+		<para>
+
+			This manual page documents briefly the <command>&progName;</command> software. 
+
+			This program can be used to load MS/MS identification engine results. It includes
+            peptide filtering, grouping algorithms, data visualization, peptide quantification using XICs.
+
+		</para>
+
+ </refsect1>
+
+ <refsect1>
+	 <title>OPTIONS</title>
+	 <variablelist>
+
+		 <varlistentry>
+			 <term><option>-h | --help</option></term>
+			 <listitem>
+				 <para>
+					 Displays detailed usage information and exits.
+				 </para>
+			 </listitem>
+		 </varlistentry>
+
+		 <varlistentry>
+			 <term><option>-v | --version</option></term>
+			 <listitem>
+				 <para>
+					 Print the version of the software program.
+				 </para>
+			 </listitem>
+		 </varlistentry>
+
+		 <varlistentry>
+			 <term><replaceable class="parameter">filename</replaceable></term>
+			 <listitem>
+				 <para>
+					 X!TandemPipeline project file to be opened.
+				 </para>
+			 </listitem>      
+		 </varlistentry>
+
+	 </variablelist>
+ </refsect1>
+
+ <refsect1>
+	 <title>Bibliographic reference to be cited</title>
+	 <para>
+		 Langella O, Valot B, Balliau T, Blein-Nicolas M, Bonhomme L, Zivy M. (2017) X!TandemPipeline: A Tool to Manage Sequence Redundancy for Protein Inference and Phosphosite Identification. J. Proteome Res., 2 (16) 494-503 
+	 </para>
+ </refsect1>
+</refentry>
+
-- 
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