 |
Page History
| Wiki Markup |
|---|
{scrollbar:icons=false}
h1. { |
| Scrollbar | ||
|---|---|---|
|
page-info |
...
| Section | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Column | Wiki Markup | :title} {section} {column:width=75%} {panel:title=Contents of this Page} {toc:minLevel=2} {panel} {column} {column} {align:right}{include:Menu LexWiki to Include}{align} |
Known Issues
The templates do not import correctly so there will be some broken (red) links on the concept pages.
Installation Process
The installation will take place in four separate steps.
- Use a bat file to extract the metadata about the concepts and write them as files into a directory.
- Run a php file to read the files and publish them to the Wiki.
- Edit the Main page to show the ontology hierarchy
- Import the templates into the Wiki
Setup and configuration
- Download and unzip the LexWikiPublisher 1.0 zip file.
- Open the lexWikiPublisher.prop file and enter the configuration information
The following are the configuration variables along with an example for each.
Required configuration information
...
{column} {section} h2. Known Issues The templates do not import correctly so there will be some broken (red) links on the concept pages. h2. Installation Process The installation will take place in four separate steps. # Use a bat file to extract the metadata about the concepts and write them as files into a directory. # Run a php file to read the files and publish them to the Wiki. # Edit the Main page to show the ontology hierarchy # Import the templates into the Wiki h2. Setup and configuration # Download and unzip the [LexWikiPublisher 1.0 zip file|^LexWikiPublisher_1_0.zip]. # Open the lexWikiPublisher.prop file and enter the configuration information The following are the configuration variables along with an example for each. h3. Required configuration information *logfile* - location to store the published concepts C:/Temp/publishbatch-local |
...
*configpath* - the path to the configuration file in the LexEVS installation |
...
X:\\services\\lexevs\\resources\\config |
...
\\lbconfig.props |
...
*csn* -the code system name to be published |
...
NPO |
...
*ccd* - the concept code at the root of the hierarchy |
...
Entity |
...
*wiki* - the name of the wiki |
...
LexWiki test |
...
*template* - SMW template name |
...
LexWiki *formname* - the name of the semantic mediawiki form LexWiki_NPO_Form |
...
h3. Optional configuration information |
...
*republishexistingpages* - Republish existing pages? |
...
yes |
...
*propertiesonly* - If you want to get properties and associations published only |
...
no |
...
*vsformname* - the name of the semantic mediawiki form for value sets |
...
*user* - Wiki user name |
...
Wiki user name |
...
*pwd* - Wiki user password |
...
Wiki user password |
...
*self* - is the selected node to be published? |
...
yes |
...
*batch* - will all the children of the selected node be published? |
...
yes |
...
*server* - the server where the wiki is located |
...
informatics.mayo.edu |
...
*port* - the port number where the wiki is setup |
...
8080 |
...
*batchsize* - number of concepts to process in each batch |
...
50 |
...
*namespace* - the over riding namespace to use for pages |
...
LexWiki master |
...
*startPage* - the starting page where index.php is the default |
...
index.php |
...
h3. Extracting concepts from LexEVS |
...
# Be sure the directory configured for the logfile variable exists and is write enabled. |
...
# Run the lexWikiPublisher file useing the bat file or shell script. h2. |
...
Publishing to the Wiki |
...
# Open a command prompt in the lexwiki's maintenance directory |
...
# Run the publish php using the directory location of the files created during the lexEVS as the only argument |
...
php publish.php /home/myhomedir/tobepublishedpages |
...
h2. Displaying the category tree |
...
# Log in to the Wiki and display the Main Page. |
...
# Click on the Edit tab at the top of the page. |
...
# Update the information between the cateegorytree tags to match your onotology information |
...
Category BGT Gene Kind(B179) not found |
...
 : : :BGT - the coding scheme name |
...
 : : :Gene Kind - the root node for the Ontology |
...
(B179) - short name for the root node |
...
Category NPO_Entity(Entity) not found |
...
h2. Importing the templates |
...
# From the wiki, select SpecialPages. |
...
# On the SpecialPages, select import file. |
...
# Import the templates which correspond to the ontology you created. |
...
{scrollbar |
...
:icons |
...
=false} |
