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* doc/babel.1, doc/obchiral.1, doc/obconformer.1, doc/obenergy.1,

Browse Source 
doc/obfit.1, doc/obgen.1, doc/obgrep.1, doc/obminimize.1,
doc/obprobe.1, doc/obprop.1, doc/obrotamer.1, doc/obrotate.1,
doc/roundtrip.1: Prevent hyphenation of URLs. Fixed an mdoc issue.
This commit is contained in:
Daniel Leidert
2009-03-02 19:02:56 +00:00
parent 2d0741fd88
commit 1deca607f1
14 changed files with 41 additions and 33 deletions
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ChangeLog
+7
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@@ -1,3 +1,10 @@
2009-03-02 Daniel Leidert <daniel.leidert@wgdd.de>
* doc/babel.1, doc/obchiral.1, doc/obconformer.1, doc/obenergy.1,
doc/obfit.1, doc/obgen.1, doc/obgrep.1, doc/obminimize.1,
doc/obprobe.1, doc/obprop.1, doc/obrotamer.1, doc/obrotate.1,
doc/roundtrip.1: Prevent hyphenation of URLs. Fixed an mdoc issue.
2009-03-02 Daniel Leidert <daniel.leidert@wgdd.de>
* src/formats/smilesformat.cpp: Correct use of sprintf().
doc/babel.1
+3 -3
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@@ -21,7 +21,7 @@ chemistry and related areas.
.Pp
Open Babel is also a complete programmers toolkit for developing
chemistry software. For more information, se the Open Babel web pages
<\fBhttp://openbabel.org/\fR>.
\%<\fBhttp://openbabel.org/\fR>.
.Sh OPTIONS
.Re
If only input and ouput files are given, Open Babel will guess the
@@ -342,7 +342,7 @@ Split a multi-molecule file into new1.smi, new2.smi, etc.:
.Xr obrotate 1 ,
.Xr obrotamer 1 .
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
.An -nosplit
A cast of many, including the currrent maintainers
@@ -351,7 +351,7 @@ A cast of many, including the currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br
doc/obchiral.1
+2 -2
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@@ -22,7 +22,7 @@ Open Babel library (libopenbabel).
.Xr obrotate 1 .
.br
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
The obchiral program was written by
.An Nick England
@@ -34,7 +34,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 2005 Nick England.
.br
doc/obconformer.1
+2 -2
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@@ -29,7 +29,7 @@ it to rotamer1.sdf after 100 geometry optimization steps
.Xr obrotate 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
.An -nosplit
Open Babel is developed by a cast of many, including currrent maintainers
@@ -38,7 +38,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br
doc/obenergy.1
+3 -3
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@@ -41,10 +41,10 @@ out all individual energy interactions:
.Xr obrotamer 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Pp
The web pages for Open Babel Molecular Mechanics can be found at:
<\fBhttp://openbabel.org/wiki/Molecular_mechanics\fR>
\%<\fBhttp://openbabel.org/wiki/Molecular_mechanics\fR>
.Sh AUTHORS
The obenergy program was contributed by
.An Tim Vandermeersch.
@@ -56,7 +56,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 2007 by Tim Vandermeersch.
.Pp
doc/obfit.1
+3 -3
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@@ -32,10 +32,10 @@ Align all the molecules in 'testmv.sdf' on a single molecule of 'testref.sdf' by
.Xr obrotate 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Pp
A guide for constructing SMARTS patterns can be found at:
<\fBhttp://www.daylight.com/dayhtml/doc/theory/theory.smarts.html\fR>
\%<\fBhttp://www.daylight.com/dayhtml/doc/theory/theory.smarts.html\fR>
.Sh AUTHORS
The obfit program was contributed by
.An Fabien Fontaine
@@ -47,7 +47,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br
doc/obgen.1
+3 -3
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@@ -38,10 +38,10 @@ UFF forcefield:
.Xr obconformer 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Pp
The web pages for Open Babel Molecular Mechanics can be found at:
<\fBhttp://openbabel.org/wiki/Molecular_mechanics\fR>
\%<\fBhttp://openbabel.org/wiki/Molecular_mechanics\fR>
.Sh AUTHORS
The obgen program was contributed by
.An Tim Vandermeersch.
@@ -53,7 +53,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 2007-2008 by Tim Vandermeersch.
.Pp
doc/obgrep.1
+3 -3
View File
@@ -60,10 +60,10 @@ directory (i.e., *.smi)
.Xr obrotate 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Pp
A guide for constructing SMARTS patterns can be found at:
<\fBhttp://www.daylight.com/dayhtml/doc/theory/theory.smarts.html\fR>
\%<\fBhttp://www.daylight.com/dayhtml/doc/theory/theory.smarts.html\fR>
.Sh AUTHORS
The obgrep program was contributed by
.An Fabien Fontaine
@@ -75,7 +75,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br
doc/obminimize.1
+3 -3
View File
@@ -51,10 +51,10 @@ steepest descent algorithm and convergence criteria 1e-5:
.Xr obrotamer 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Pp
The web pages for Open Babel Molecular Mechanics can be found at:
<\fBhttp://openbabel.org/wiki/Molecular_mechanics\fR>
\%<\fBhttp://openbabel.org/wiki/Molecular_mechanics\fR>
.Sh AUTHORS
The minimize program was contributed by
.An Tim Vandermeersch.
@@ -66,7 +66,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 2007 by Tim Vandermeersch.
.Pp
doc/obprobe.1
+3 -2
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@@ -29,6 +29,7 @@ the molecule.
MMFF94 atom type
.It Ar pchg
MMFF94 partial charge
.El
.Sh EXAMPLES
.Pp
Probe the file pyridines.sdf using a carbonyl oxygen -- a hydrogen
@@ -42,7 +43,7 @@ hydrophobic atom with no partial charge:
.Xr babel 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
The obprobe program was contributed by
.An Tim Vandermeersch.
@@ -54,7 +55,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 2006-2008 by Tim Vandermeersch
.br
doc/obprop.1
+2 -2
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@@ -66,7 +66,7 @@ The "$$$" is the separator between multiple molecular entries in a file
.Xr obrotate 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
The obprop program was contributed by
.An Fabien Fontaine
@@ -78,7 +78,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 2003 by Fabien Fontaine
.br
doc/obrotamer.1
+2 -2
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@@ -27,7 +27,7 @@ it to rotamer1.sdf
.Xr obrotate 1 .
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
.An -nosplit
Open Babel is developed by a cast of many, including currrent maintainers
@@ -36,7 +36,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br
doc/obrotate.1
+3 -3
View File
@@ -60,10 +60,10 @@ Keep the aliphatic chain fixed and move the pyridyl ring:
.Pp
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Pp
A guide for constructing SMARTS patterns can be found at:
<\fBhttp://www.daylight.com/dayhtml/doc/theory/theory.smarts.html\fR>
\%<\fBhttp://www.daylight.com/dayhtml/doc/theory/theory.smarts.html\fR>
.Sh AUTHORS
The obgrep program was contributed by
.An Fabien Fontaine
@@ -75,7 +75,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br
doc/roundtrip.1
+2 -2
View File
@@ -24,7 +24,7 @@ Compare two files created via a roundtrip test
.Xr babel 1
.Pp
The web pages for Open Babel can be found at:
<\fBhttp://openbabel.org/\fR>
\%<\fBhttp://openbabel.org/\fR>
.Sh AUTHORS
.An -nosplit
Open Babel is developed by a cast of many, including currrent maintainers
@@ -33,7 +33,7 @@ Open Babel is developed by a cast of many, including currrent maintainers
.An Michael Banck ,
and innumerable others who have contributed fixes and additions.
For more contributors to Open Babel, see
<\fBhttp://openbabel.org/wiki/THANKS\fR>
\%<\fBhttp://openbabel.org/wiki/THANKS\fR>
.Sh COPYRIGHT
Copyright (C) 1998-2001 by OpenEye Scientific Software, Inc.
.br