目次
PubChem Plugin
This is a plugin for DokuWiki that creates the link or retrieve chemical structure for the compound identified by CID (Compound ID).
{{pubchem>[(COMMAND)|(COMMAND:CID)}}
COMMAND: link, small, large, clear_cache, searchbox
Functions
| command | function |
|---|---|
| small | Display a small image of chemical structure |
| large | Display a large image of chemical structure |
| summaryXml | Display a summary XML from NCBI Structure database |
| IUPAC | Display an IUPAC name of a compound |
| formula | Display a molecular formula of a compound |
| searchBox | Display a search box of PubChem |
| clear | Clear all PubChem cache files |
| remove_dir | Clear and remove cache directory |
Examples
Link
A syntax {{pubchem>link:6248}} creates a link like this.
Images
{{pubchem>large:6248}} retrieves a large image of chemical structure.
{{pubchem>small:6248}} retrieves a small image of chemical structure.
SearchBox
You can display a search box for PubChem with {{pubchem>searchbox}}.
summaryXml
{{pubchem>summaryXML:6248}} displays a summary XML from NCBI.
Formula
{{pubchem>formula:6248}} displays a chemical formula of compound.
IUPAC
{{pubchem>IUPAC:6248}} displays an IUPAC name of compound.
Clearing cache images
You can clear all image files by {{pubchem>clear_cache}}. {{pubchem>remove_dir}} will clear all files and pubchem directory.
Installation
Recent dokuwiki has Extension manager in Admin tools. It can download and install the plugin automatically.
for very old dokuwiki
-Install bio plugin and cache plugin if not installed.
-Download and extract pubchem.zip (6 KB).
-Upload the folder your DokuWiki at /lib/plugins/
This plugin automatically creates 'pubchem' namespace and caches images of chemical structure there.
History
- 2016.10.24
- URLs are changed to https: according to changes in Web API of NCBI database.
- 2008.3.22
- Some functions were parted into bio plugin and cache plugin.
- 2008.3.16
- Vulnerability (XSS) was fixed.
- 2007.12.08
- Fix around creation of directory & ACL
- 'Clear_cache' functionality
- Append an icon image