Sort all includes in src/gromacs

[alexxy/gromacs.git] / src / gromacs / selection / selhelp.cpp

diff --git a/src/gromacs/selection/selhelp.cpp b/src/gromacs/selection/selhelp.cpp
index a0f75ee77af1f7aaf8723228f2f71d5b4f2083ab..4a52815f378e9bc15b1bf8cc47196309d4dc19ff 100644 (file)
--- a/src/gromacs/selection/selhelp.cpp
+++ b/src/gromacs/selection/selhelp.cpp
@@ -1,43 +1,51 @@
 /*
+ * This file is part of the GROMACS molecular simulation package.
  *
- *                This source code is part of
+ * Copyright (c) 2009,2010,2011,2012,2013,2014, by the GROMACS development team, led by
+ * Mark Abraham, David van der Spoel, Berk Hess, and Erik Lindahl,
+ * and including many others, as listed in the AUTHORS file in the
+ * top-level source directory and at http://www.gromacs.org.
  *
- *                 G   R   O   M   A   C   S
+ * GROMACS is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU Lesser General Public License
+ * as published by the Free Software Foundation; either version 2.1
+ * of the License, or (at your option) any later version.
  *
- *          GROningen MAchine for Chemical Simulations
+ * GROMACS is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+ * Lesser General Public License for more details.
  *
- * Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
- * Copyright (c) 1991-2000, University of Groningen, The Netherlands.
- * Copyright (c) 2001-2009, The GROMACS development team,
- * check out http://www.gromacs.org for more information.
-
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
+ * You should have received a copy of the GNU Lesser General Public
+ * License along with GROMACS; if not, see
+ * http://www.gnu.org/licenses, or write to the Free Software Foundation,
+ * Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA.
  *
- * If you want to redistribute modifications, please consider that
- * scientific software is very special. Version control is crucial -
- * bugs must be traceable. We will be happy to consider code for
- * inclusion in the official distribution, but derived work must not
- * be called official GROMACS. Details are found in the README & COPYING
- * files - if they are missing, get the official version at www.gromacs.org.
+ * If you want to redistribute modifications to GROMACS, please
+ * consider that scientific software is very special. Version
+ * control is crucial - bugs must be traceable. We will be happy to
+ * consider code for inclusion in the official distribution, but
+ * derived work must not be called official GROMACS. Details are found
+ * in the README & COPYING files - if they are missing, get the
+ * official version at http://www.gromacs.org.
  *
  * To help us fund GROMACS development, we humbly ask that you cite
- * the papers on the package - you can find them in the top README file.
- *
- * For more info, check our website at http://www.gromacs.org
+ * the research papers on the package. Check out http://www.gromacs.org.
  */
 /*! \internal \file
  * \brief
  * Implements functions in selhelp.h.
  *
- * \author Teemu Murtola <teemu.murtola@cbr.su.se>
+ * \author Teemu Murtola <teemu.murtola@gmail.com>
  * \ingroup module_selection
  */
+#include "gmxpre.h"
+
+#include "selhelp.h"
+
 #include <string>
-#include <vector>
 #include <utility>
+#include <vector>
 
 #include <boost/scoped_ptr.hpp>
 
@@ -47,7 +55,6 @@
 #include "gromacs/utility/file.h"
 #include "gromacs/utility/stringutil.h"
 
-#include "selhelp.h"
 #include "selmethod.h"
 #include "symrec.h"
 
@@ -223,7 +230,7 @@ const char *const ExamplesHelpText::text[] = {
     "[PAR]",
 
     "All atoms farther than 1 nm of a fixed position:[BR]",
-    "  not within 1 of (1.2, 3.1, 2.4)",
+    "  not within 1 of [1.2, 3.1, 2.4]",
     "[PAR]",
 
     "All atoms of a residue LIG within 0.5 nm of a protein (with a custom name):[BR]",
@@ -271,7 +278,7 @@ const char        LimitationsHelpText::title[] =
     "Selection limitations";
 const char *const LimitationsHelpText::text[] = {
     "Some analysis programs may require a special structure for the input",
-    "selections (e.g., [TT]g_angle[tt] requires the index group to be made",
+    "selections (e.g., [TT]gmx angle[tt] requires the index group to be made",
     "of groups of three or four atoms).",
     "For such programs, it is up to the user to provide a proper selection",
     "expression that always returns such positions.",
@@ -611,7 +618,7 @@ void KeywordsHelpTopic::printKeywordList(const HelpWriterContext &context,
 
 }   // namespace
 
-/*! \cond internal */
+//! \cond libapi */
 HelpTopicPointer createSelectionHelpTopic()
 {
     CompositeHelpTopicPointer root(new CompositeHelpTopic<CommonHelpText>);