1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
|
xymtx406.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002, 2004, 2005, 2009 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx405.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002, 2004, 2005, 2009 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx404.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002, 2004, 2005, 2009 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx403.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002, 2004,2005 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx402.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002, 2004 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx401.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002, 2004 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx400.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx300.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998, 2001, 2002 by Shinsak Fujita.
All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
xymtx201.doc
On-line document for XyMTeX in English
Copyright (C) 1993, 1996, 1998,2001 by Shinsak Fujita. All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
renamed and revised: xymtex2.doc
Copyright (C) 1993, 1996, 1998 by Shinsak Fujita. All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
renamed and revised: xymtex1.doc
Copyright (C) 1993, 1996 by Shinsak Fujita. All rights reserved.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
`XyMTeX' is a macro package for drawing chemical structural formulas.
(1) Setting up
The XyMTeX system has been frozen with ZIP. Set up according to the software
situation of your computer.
The following is only one example. Let the frozen package
(xymtx406.zip or xymtx406-CTAN.zip) be placed in the c:\temp directory,
where the package is melt with an appropriate software for melting.
Thereby, the directory <\xymtex> is automatically created as the
subdirectory of the c:\temp directory; and the following hierarchy of
directories and files is generated.
(The xymtex directory in the deposit uploaded to CTAN does not contain \jobdoc
subdirectories for the sake of lighter load.
For full document directories, visit the original deposit of the latest version at
http://xymtex.com/ (Shonan Institute of Chemoinformatics and Mathematical
Chemistry)).
c---\temp---\xymtex --- xymtex.sty, xymtexps.sty
| | | hetaromh.sty, hetarom.sty, ccycle.sty,
| chemstr.sty, carom.sty, lowcycl.sty, aliphat.sty,
| hcycle.sty, locant.sty, polymers.sty, chemist.sty
| methylen.sty, fusering.sty,
| sizeredc.sty, steroid.sty,
| lewisstruc.sty, chemtimes.sty
| (dtx files)
|
|---\xymtxps---xymtx-ps.sty, chmst-ps.sty
| (dtx files)
|
|--\drvdvi---drv files
|
|--\doc101--- xymtex.pdf
|
|--\doc200----\jobdoc --- xymtx200.tex, xymtx200.dvi,
| | xymyl.tex, xymadd.tex
| | (other files for the document preparation)
| |--xymtx200.dvi (on-line document)
| |--xymtx200.pdf (on-line document)
|
|
|--\doc300----\jobdoc --- xymtx300.tex, xymtx300.dvi,
| | (other files for the document preparation)
| |--xymtx300.dvi (on-line document)
| |--xymtx300.pdf (on-line document)
|
|--\doc401----\olddoc400 xymtx400.tex, xymtx400.ps, etc.
| |
| |--\jobdoc401 xymtx401.tex, xymtx401.ps, etc.
| |
| |--xymtx401.pdf (on-line document)
|
|--\doc402403----\jobdoc --- xymtx402403.tex, xymtx402403.dvi,
| | (other files for the document preparation)
| |
| |--xymtx402403.pdf (on-line)
|
|--\doc404-------\jobdoc --- xymtx404.tex, xymtx404.dvi,
| | (other files for the document preparation)
| |
| |--xymtx404.pdf (on-line)
|
|--\doc405406----\jobdoc405406 --- xymtx405A.tex, xymtx405A.dvi,
| | xymtx405A.ps,
| | xymtx405406B.tex, xymtx405406B.dvi, xymtx405406B.ps,
| | xymtx405406C.tex, xymtx405406C.dvi, xymtx405406C.ps
| |
| |--xymtx405A.pdf (on-line document)
| |--xymtx405406B.pdf (on-line document)
| |--xymtx405406C.pdf (on-line document)
|
|---xymtx406.doc (this document)
|
|---xymtx406.jpn (on-line document in Japanese)
|
|---readm406.doc (notes in English)
|
|---readm406.jpn (notes in Japanese)
|
Each of the package (sty) files in the \xymtex directory contains the macro
codes of XymTeX commands. The specification of XyMTeX commands and
examples of using these commands are included in the xymtex.dvi file of
the \doc... directory.
Among the three tex files for Version 4.05 (xymtx405A.tex, xymtx405B.tex,
and xymtx405C.tex), the latter two have been rewritten to explain the
items added by XyMTeX Version 4.06 (harpoons etc.), so as to be renamed into
xymtx405406B.tex, and xymtx405406B.tex. They have sotored in the
\doc405406\jobdoc405406 directory and have used to generate
xymtx405406B.dvi and xymtx405406C.dvi, which have been converted into
the corresponding PostScript files (xymtx405406B.ps and xymtx405406C.ps).
These PostScript files have been further converted into PDF files
(xymtx405406B.pdf and xymtx405406C.pd ), which can be browsed
with Adobe Acrobat.
========================for old documentations==================================
The xymtx200.dvi file is a dvi file that is a manual for utilizing
XyMTeX (about 100 pages). The processed dvi file can be obtained in the same
directory of this distribution. It can be printed with an appropriate
printer driver (dviout, or others) and can be displayed with an
appropriate previewer (dviout, etc.). The corresponding PDF file (xymtx200.pdf)
is also available.
--
The xymtx300.tex is the main file of the manuscript for creating the
xymtx300.dvi. The other tex files in the \doc300 directory are input files
which are read by the main file. The corresponding PDF file (xymtx300.pdf)
is also available.
--
The xymtx401.tex in the \doc401\jobdoc401 directory is the main file of the manuscript
for creating the xymtx401.dvi. This dvi file has bee furthern converted into
the corresponding PostScript file (xymtx401.ps), which should be browsed by
using an appropriate PostScript view. This Postscript file has been further
converted into a PDF file (named xymtx401.pdf), which can be browsed
with Adobe Acrobat.
Caution: Don't browse xymtx401.dvi by a dvi-ware such as dviout!
The other tex files in the \doc401\jobdoc401 directory are input files
which are read by the main file.
--
The xymtx402403.tex in the \doc402403\jobdoc402 directory is the main file of the manuscript
for creating the xymtx402403.dvi. This dvi file has bee furthern converted into
the corresponding PostScript file (xymtx402403.ps), which should be browsed by
using an appropriate PostScript view. This Postscript file has been further
converted into a PDF file (named xymtx402403.pdf), which can be browsed
with Adobe Acrobat.
Caution: Don't browse xymtx402403.dvi by a dvi-ware such as dviout!
The other tex files in the \doc402403\jobdoc402 directory are input files
which are read by the main file.
--
The xymtx404.tex in the \doc404\jobdoc directory is the main file of the manuscript
for creating the xymtx404.dvi. This dvi file has been further converted into
the corresponding PostScript file (xymtx404.ps), which should be browsed by
using an appropriate PostScript view. This Postscript file has been further
converted into a PDF file (named xymtx404.pdf), which can be browsed
with Adobe Acrobat.
Caution: Don't browse xymtx404.dvi by a dvi-ware such as dviout!
The other tex files in the \doc404\jobdoc directory are input files
which are read by the main file.
--
The three tex files, xymtx405A.tex, xymtx405B.tex, and xymtx405C.tex
in the \doc405\jobdoc405 directory is the main files of the manuscript
for creating the corresponding xymtx405A.dvi, xymtx405B.dvi, and xymtx405C.dvi.
Thise dvi files (not included) have been further converted into
the corresponding PostScript files (xymtx405A.ps etc.), which should be browsed by
using an appropriate PostScript view. This Postscript files have been further
converted into PDF files (named xymtx405A.pdf etc.), which can be browsed
with Adobe Acrobat.
====================================================================
(2) Designating a serach path
Do this task according to the situtation of your computer.
The path searching tool (kpathsea) supported by usual TeX distributions has already decided
several input directories (named ``tex'' or others). Hence, you should only place the resulting
``xymtex'' directry generated from xymtx406.zip in such an appropriate directory named
``tex'' or others (e.g., c:\usr\local\share\texmf\tex\latex).
(3) Writing your manuscript
Each command of XyMTeX can be used if you add the name of the
corresponding style file to the option list at the top of your
manuscript file, e.g.
\documentclass{article}
\usepackage{epic,hetarom,hetaromh,xymtx-ps}
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
where the underlined names are XyMTeX package files containing your
requisite commands. If all of the XyMTeX commands are required,
the short-cut declaration (recommended because of advanced capacities of
personal computers):
For using the LaTeX picture environment and epic:
\documentclass{article}
\usepackage{xymtex}
For using under Postscript mode due to PSTricks techiques:
\documentclass{article}
\usepackage{xymtxps}
can be used for simplicity. The include packages (chemist.sty, chmst-ps.sty,
chemtimes.sty) should be loaded separately after xymtex.sty or xymtexps.sty
is loaded.
(4) Running LaTeX2e or pLaTeX2e
You should use XyMTeX commands within LaTeX to creat a dvi file.
(5) Conversion of the dvi file into a PostScript file (by e.g., dvipsk)
(6) Conversion of the PostScript file into a PDF file (by e.g., Adobe Distiller)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%(END)
|
