Author: egonw-guest Date: 2006-02-17 08:51:18 +0000 (Fri, 17 Feb 2006) New Revision: 1920
Added: trunk/cdk/debian/cdk-manpages/ trunk/cdk/debian/cdk-manpages/cdk-dbadmin.xml trunk/cdk/debian/cdk-manpages/cdk-download.xml trunk/cdk/debian/cdk-manpages/cdk-fileconvert.xml trunk/cdk/debian/cdk-manpages/cdk-fingerprinter.xml trunk/cdk/debian/cdk-manpages/cdk-guessformat.xml trunk/cdk/debian/cdk-manpages/cdk-iupacname.xml trunk/cdk/debian/cdk-manpages/cdk-substructure.xml trunk/cdk/debian/cdk-manpages/cdk-test.xml trunk/cdk/debian/cdk-manpages/cdk-validate.xml trunk/cdk/debian/cdk-manpages/cdk-view.xml Log: Added missing XML sources of the manual pages Added: trunk/cdk/debian/cdk-manpages/cdk-dbadmin.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-dbadmin.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-dbadmin.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,123 @@ +<refentry id="cdk-dbadmin"> + + <refmeta> + <refentrytitle>cdk-dbadmin</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-dbadmin</refname> + <refpurpose>administrate chemical database</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-dbadmin</command> + <arg>--useHost [hostname]</arg> + <arg>--useDatabase [database name]</arg> + <arg>--useDriver [mysql|postgresql]</arg> + <arg>--username [username]</arg> + <arg>--passwd [pwd]</arg> + <arg>--createDefaultTables</arg> + <arg>--listTables</arg> + <arg>--deleteTables</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>OPTIONS</title> + <variablelist> + <varlistentry> + <term>--useHost [hostname]</term> + <listitem> + <para>sets the hostname of the machine on which the database is run</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--useDatabase [database name]</term> + <listitem> + <para>sets the name of the database in which the tables are stored</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--useDriver [mysql|postgresql]</term> + <listitem> + <para>sets the JDBC driver used to access the database (Only MySQL is currently working.)</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--username [username]</term> + <listitem> + <para>sets the username of the account with which the database can be accessed</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--passwd [pwd]</term> + <listitem> + <para>sets the password for the account with which the database can be accessed</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--createDefaultTables</term> + <listitem> + <para>create the default tables in the chemical database</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--listTables</term> + <listitem> + <para>lists all information on the tables in the chemical database</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--deleteTables</term> + <listitem> + <para>deletes all tables from the chemical database</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-dbadmin</command> is used to prepare and delete tables from + a chemical database. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-dbadmin.xml,v 1.1 2002/08/31 14:43:07 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2001-2002 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> + Added: trunk/cdk/debian/cdk-manpages/cdk-download.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-download.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-download.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,73 @@ +<refentry id="cdk-download"> + + <refmeta> + <refentrytitle>cdk-download</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-download</refname> + <refpurpose>download chemical information from the internet</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-download</command> + <arg>CAS NUMBER</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>OPTIONS</title> + <variablelist> + <varlistentry> + <term>CAS NUMBER</term> + <listitem> + <para>CAS number of the structure you want to download</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-download</command> retrieves the 2D coordiante file + of the requested compound. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-download.xml,v 1.1 2002/08/31 14:43:07 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2002 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Added: trunk/cdk/debian/cdk-manpages/cdk-fileconvert.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-fileconvert.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-fileconvert.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,111 @@ +<refentry id="cdk-fileconvert"> + + <refmeta> + <refentrytitle>cdk-fileconvert</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-fileconvert</refname> + <refpurpose>converts one or more files to another format</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-fileconvert</command> + <arg>OPTIONS</arg> + <arg>input files</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>OPTIONS</title> + <variablelist> + <varlistentry> + <term>-h/--help</term> + <listitem> + <para>Print the help</para> + </listitem> + </varlistentry> + <varlistentry> + <term>-o[format]/--outputformat:[format]</term> + <listitem> + <para>Defines the output format to use. (See below for a list of + possible formats)</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--quesion:[none|fewest|some|all]</term> + <listitem> + <para>Defines the level of customization of the file IO.</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--listoptions:[format]</term> + <listitem> + <para>Lists the options of customization of the given file format.</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--properties:[format]</term> + <listitem> + <para>Use a Java properties file to define the file IO option + values.</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-fileconvert</command> reads a input file and converts + it to a new file with an other format. + Supported input formats are + <acronym>CML</acronym>, + <acronym>MDL Molfile</acronym>, + <acronym>PDB</acronym>, + <acronym>PMP</acronym>, + <acronym>SHELX</acronym> and + <acronym>XYZ</acronym>. The input format is automatically detected. + </para> + <para> + Supported output formats are: cml, gin, mol, pdb, shelx, smi, svg and + xyz. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-fileconvert.xml,v 1.3 2003/07/03 08:48:56 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2001-2003 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Property changes on: trunk/cdk/debian/cdk-manpages/cdk-fileconvert.xml ___________________________________________________________________ Name: svn:executable + * Added: trunk/cdk/debian/cdk-manpages/cdk-fingerprinter.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-fingerprinter.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-fingerprinter.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,61 @@ +<refentry id="cdk-fingerprinter"> + + <refmeta> + <refentrytitle>cdk-fingerprinter</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-fingerprinter</refname> + <refpurpose>generates CDK fingerprints for the given molecules</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-fingerprinter</command> + <arg>file</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-fingerprinter</command> reads one or more input files + and generates CDK fingerprints for all the molecules it finds. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-fingerprinter.xml,v 1.1 2004/01/12 11:50:58 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2003-2004 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Property changes on: trunk/cdk/debian/cdk-manpages/cdk-fingerprinter.xml ___________________________________________________________________ Name: svn:executable + * Added: trunk/cdk/debian/cdk-manpages/cdk-guessformat.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-guessformat.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-guessformat.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,61 @@ +<refentry id="cdk-guessformat"> + + <refmeta> + <refentrytitle>cdk-guessformat</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-guessformat</refname> + <refpurpose>guesses the file format of a file</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-guessformat</command> + <arg>file</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-guessformat</command> reads an input file and tries + to determine the file format. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-guessformat.xml,v 1.1 2003/05/27 14:33:52 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2003 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Property changes on: trunk/cdk/debian/cdk-manpages/cdk-guessformat.xml ___________________________________________________________________ Name: svn:executable + * Added: trunk/cdk/debian/cdk-manpages/cdk-iupacname.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-iupacname.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-iupacname.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,67 @@ +<refentry id="cdk-iupacname"> + + <refmeta> + <refentrytitle>cdk-iupacname</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-iupacname</refname> + <refpurpose>generates the IUPAC name for the given molecule</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-iupacname</command> + <arg>file</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-iupacname</command> reads an input file and tries + to generate a IUPAC name for this structure. Currently only + a few IUPAC rules are implemented, but simple alkane structures + can be named. + </para> + <para> + The output language can be set using <arg>--dutch</arg> or + <arg>--german</arg>. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-iupacname.xml,v 1.1 2003/08/15 08:13:40 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2003 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Property changes on: trunk/cdk/debian/cdk-manpages/cdk-iupacname.xml ___________________________________________________________________ Name: svn:executable + * Added: trunk/cdk/debian/cdk-manpages/cdk-substructure.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-substructure.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-substructure.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,64 @@ +<refentry id="cdk-substructure"> + + <refmeta> + <refentrytitle>cdk-substructure</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-substructure</refname> + <refpurpose>searches through a set of files to find a given + substructure</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-substructure</command> + <arg>SMILES</arg> + <arg>files</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-substructure</command> reads one or more an input files + and determines wether the structure given by the SMILES (after removal + of hydrogens) is a substructure of the input file. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-substructure.xml,v 1.1 2003/08/15 08:13:40 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2003 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Property changes on: trunk/cdk/debian/cdk-manpages/cdk-substructure.xml ___________________________________________________________________ Name: svn:executable + * Added: trunk/cdk/debian/cdk-manpages/cdk-test.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-test.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-test.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,61 @@ +<refentry id="cdk-test"> + + <refmeta> + <refentrytitle>cdk-test</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-test</refname> + <refpurpose>perform JUnit tests on CDK classes</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-test</command> <arg>JUnit test</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-test</command> opens up a JUnit window for testing + CDK classes. The optional argument is used to set the JUnit test + that is loaded, e.g. org.openscience.cdk.test.CDKTests. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-test.xml,v 1.1 2003/01/01 16:42:09 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2001-2003 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Added: trunk/cdk/debian/cdk-manpages/cdk-validate.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-validate.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-validate.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,62 @@ +<refentry id="cdk-validate"> + + <refmeta> + <refentrytitle>cdk-validate</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-validate</refname> + <refpurpose>checks the chemical content of a file</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-validate</command> + <arg>file</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-validate</command> reads an input file and checks wether + the chemistry that is described in that file is correct, or might contain + problems. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-validate.xml,v 1.1 2003/07/14 20:57:59 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2003 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> Property changes on: trunk/cdk/debian/cdk-manpages/cdk-validate.xml ___________________________________________________________________ Name: svn:executable + * Added: trunk/cdk/debian/cdk-manpages/cdk-view.xml =================================================================== --- trunk/cdk/debian/cdk-manpages/cdk-view.xml 2006-02-16 17:17:06 UTC (rev 1919) +++ trunk/cdk/debian/cdk-manpages/cdk-view.xml 2006-02-17 08:51:18 UTC (rev 1920) @@ -0,0 +1,92 @@ +<refentry id="cdk-view"> + + <refmeta> + <refentrytitle>cdk-view</refentrytitle> + <manvolnum>1</manvolnum> + </refmeta> + + <refnamediv> + <refname>cdk-view</refname> + <refpurpose>view content of chemical file</refpurpose> + </refnamediv> + + <refsynopsisdiv> + <cmdsynopsis> + <command>cdk-view</command> <arg>--nojava3d</arg> <arg>--no3d</arg> <arg>--useJmol</arg> <arg>file.xml</arg> + <command>cdk-view</command> <arg>--smiles</arg> <arg>SMILES</arg> + </cmdsynopsis> + </refsynopsisdiv> + + <refsect1> + <title>OPTIONS</title> + <variablelist> + <varlistentry> + <term>--nojava3d</term> + <listitem> + <para>do not try to use Java3D for viewing 3D coordinates</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--no3d</term> + <listitem> + <para>do not view 3D coordinates</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--smiles</term> + <listitem> + <para>show a 2D representation of the SMILES</para> + </listitem> + </varlistentry> + <varlistentry> + <term>--useTree</term> + <listitem> + <para>shows a ChemObjectTree of the loaded file</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + + <refsect1> + <title>DESCRIPTION</title> + <para> + <command>cdk-view</command> displays to content of the file + <filename>file.xml</filename> with the format CML, IChI, MDLMol, + PDB and XYZ. + </para> + </refsect1> + + <refsect1> + <title>VERSION</title> + <para> + $Id: cdk-view.xml,v 1.3 2003/01/01 16:42:09 egonw Exp $ + </para> + </refsect1> + + <refsect1> + <title>COPYRIGHT</title> + <para> + Copyright (C) 2001-2002 The CDK Project + </para> + <para> +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. + </para> + <para> +This program 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 General Public License for more details. + </para> + </refsect1> + + <refsect1> + <title>AUTHOR</title> + <para> + Egon Willighagen <email>[EMAIL PROTECTED]</email> + </para> + </refsect1> + +</refentry> _______________________________________________ pkg-java-commits mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/pkg-java-commits
