Remove .tpa, .tpb, .tpx, .trj files. Part of #1500.

[alexxy/gromacs.git] / src / contrib / anaf.c

diff --git a/src/contrib/anaf.c b/src/contrib/anaf.c
index 04d4b5e232b2c43ec14db308c8c99d54ff364ff6..8267fea6b070684dfa4fd5971ca5b94af4f5cc0b 100644 (file)
--- a/src/contrib/anaf.c
+++ b/src/contrib/anaf.c
@@ -1,39 +1,36 @@
 /*
- * This file is part of the GROMACS molecular simulation package.
- *
+ * 
+ *                This source code is part of
+ * 
+ *                 G   R   O   M   A   C   S
+ * 
+ *          GROningen MAchine for Chemical Simulations
+ * 
+ *                        VERSION 3.3.99_development_20071104
+ * Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
  * Copyright (c) 1991-2000, University of Groningen, The Netherlands.
  * Copyright (c) 2001-2006, The GROMACS development team,
  * check out http://www.gromacs.org for more information.
- * Copyright (c) 2012, by the GROMACS development team, led by
- * David van der Spoel, Berk Hess, Erik Lindahl, and including many
- * others, as listed in the AUTHORS file in the top-level source
- * directory and at http://www.gromacs.org.
- *
- * 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
+
+ * 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.
- *
- * 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.
- *
- * 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 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.
- *
+ * 
+ * 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.
+ * 
  * To help us fund GROMACS development, we humbly ask that you cite
- * the research papers on the package. Check out http://www.gromacs.org.
+ * 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
+ * 
+ * And Hey:
+ * Groningen Machine for Chemical Simulation
  */
 #ifdef HAVE_CONFIG_H
 #include <config.h>
@@ -42,22 +39,21 @@
 #include <stdio.h>
 #include <string.h>
 #include <math.h>
-#include "main.h"
+
 #include "macros.h"
-#include "futil.h"
-#include "statutil.h"
+#include "gromacs/utility/futil.h"
+#include "gromacs/commandline/pargs.h"
 #include "copyrite.h"
-#include "sysstuff.h"
 #include "txtdump.h"
-#include "gmx_fatal.h"
-#include "xtcio.h"
-#include "enxio.h"
-#include "smalloc.h"
-#include "gmxfio.h"
-#include "tpxio.h"
-#include "trnio.h"
+#include "gromacs/utility/fatalerror.h"
+#include "gromacs/fileio/xtcio.h"
+#include "gromacs/fileio/enxio.h"
+#include "gromacs/utility/smalloc.h"
+#include "gromacs/fileio/gmxfio.h"
+#include "gromacs/fileio/tpxio.h"
+#include "gromacs/fileio/trnio.h"
 #include "txtdump.h"
-#include "vec.h"
+#include "gromacs/math/vec.h"
 
 static char *nm[5]  = { "OW", "HW1", "HW2", "DW", "SW" };
   
@@ -141,9 +137,9 @@ static void list_trn(char *fn)
 int main(int argc,char *argv[])
 {
   static char *desc[] = {
-    "[TT]gmxdump[tt] reads a run input file ([TT].tpa[tt]/[TT].tpr[tt]/[TT].tpb[tt]),",
-    "a trajectory ([TT].trj[tt]/[TT].trr[tt]/[TT].xtc[tt]) or an energy",
-    "file ([TT].ene[tt]/[TT].edr[tt]) and prints that to standard",
+    "[TT]gmxdump[tt] reads a run input file ([TT].tpr[tt]),",
+    "a trajectory ([TT].trr[tt]/[TT].xtc[tt]) or an energy",
+    "file ([TT].edr[tt]) and prints that to standard",
     "output in a readable format. This program is essential for",
     "checking your run input file in case of problems.[PAR]"
   };
@@ -165,7 +161,7 @@ int main(int argc,char *argv[])
     list_trn(fn);
   }
   
-  thanx(stderr);
+  gmx_thanx(stderr);
 
   return 0;
 }