Module:Biota infobox
 | This module is rated as alpha. It is ready for third-party input, and may be used on a few pages to see if problems arise, but should be watched. Suggestions for new features or changes in their input and output mechanisms are welcome. |
 | This module is subject to page protection. It is a highly visible module in use by a very large number of pages, or is substituted very frequently. Because vandalism or mistakes would affect many pages, and even trivial editing might cause substantial load on the servers, it is protected from editing. |
This module started out as a quick module for template {{paraphyletic group}}, but has morphed into a module to emulate the {{taxobox/core}}. Handling for templates that call the core has been added for {{taxobox}}, {{Automatic taxobox}} and {{Speciesbox}}, but is incomplete.
Data subpages
Examples:
- User:Jts1882/taxobox/manual (manual taxobox version)
- User:Jts1882/taxobox/auto (automatic taxobox version)
- User:Jts1882/taxobox/species (speciesbox version)
- User:Jts1882/taxobox/infra (subspeciesbox and infraspeciesbox versions)
- User:Jts1882/taxobox/para (paraphyletic group versions)
- User:Jts1882/taxobox/Wikidata (wikidata versions)
Sandbox version at Module:Sandbox/Jts1882/Biota infobox.
Usage
{{#invoke:Biota infobox|function_name}}
require('Module:No globals')
-- All Lua modules on Wikipedia must begin by defining a variable that will hold their
-- externally accessible functions. They can have any name and may also hold data.
local p = {}
local data = require( 'Module:Biota infobox/data' ) -- contains the taxon ranks in order
local autotaxa = require("Module:Autotaxobox")
local parent = mw.getCurrentFrame():getParent()
--[[TODO some preliminary processing of arguments
could check for empty strings and remove from list, but what if using as flag (e.g. "|parent=")
want to check for alternatives, e.g. "regnum authority" or "regnum_authority" (replace space with underscore)
e.g. param = mw.ustring.gsub(param, "_", " ");
--]]
function p.preprocessArgs(frame) --TODO test fully
--local params = parent.args -- TODO how to do without full list of parameters
local params = { 'image upright', 'image caption', 'type genus' }
for k,v in pairs(params) do
if parent.args[v] then -- and mw.ustring.match(parent.args[v], " ") then
--params[v] = string.gsub(params[v], ".+(%s).+", "%_");
local u = string.gsub(v, "%s+", "_"); -- v = "param name" --> u = "param_name"
parent.args[u] = parent.args[v]
end
end
end
------------------------------------------------------------------------------------------------
-- handle specific requirements of different options: manual, auto, speciesbox etc
function p.specialTaxoboxOptions(frame)
-- "the automated taxobox first looks for the taxonomy template that matches the supplied |taxon= parameter "
-- "(or, if none is supplied, the article's title, ignoring any parenthetical expressions). "
if not parent.args['taxon'] or parent.args['taxon'] == "" then
parent.args['taxon'] = parent.args['name'] or tostring( mw.title.getCurrentTitle())
--TODO strip name of parenthetical terms off page title
end
-- parent.args['parent'] = parent.args['taxon'] -- cannot set here as speciesbox uses parent to override genus as parent
--[[ possible extra option: use genus and species to set parent
if parent.args['genus'] and parent.args['species'] then
parent.args['taxon'] = parent.args['genus'] .. ' ' .. parent.args['species']
parent.args['parent'] = parent.args['genus']
end
--]]
parent.args['display_taxa'] = parent.args['display_parents'] or 1 -- confusing change of parameter name
local extinct = ""
--if parent.args['extinct'] then extinct = "†" end
if parent.args['extinct'] then extinct = frame:expandTemplate{ title = 'extinct' } end -- use template to get tooltip
-- ------------------------variables for SPECIESBOX, SUBSPECIESBOX and INFRASPECIESBOX------------------------------
-- setup for speciesbox (including set binomial)
if parent.args['auto'] == "speciesbox" then
-- string handling testing on "Panthera leo" speciesbox
--parent.args['genus'] = string.match(parent.args['taxon'] , "^(%a+)%s" ) -- Panthera
--parent.args['species'] = string.gsub(parent.args['taxon'] , "^(%a+)%s" , "") -- leo and reference
--parent.args['species'] = string.match(parent.args['taxon'] , "%s(%a+)$" ) -- leo and reference
--parent.args['species'] = string.match(parent.args['taxon'] , "%s(%a+)." ) -- leo without reference
-- mw.text.split( s, pattern, plain
-- speciesbox assumes taxon given as binomial (in documentation), but also takes genus and species (which priority?)
if parent.args['genus'] and parent.args['species'] then
--TODO strip off (disambiguater) to handle multi-kingdom genus e.g.| genus = Acanthocarpus (plant)
local genus =mw.text.split( parent.args['genus'], " ", true )
if genus[1] ~= "" then
parent.args['parent']=parent.args['genus'] -- set parent
parent.args['genus'] = genus[1]
end
parent.args['taxon'] = parent.args['genus'] .. ' ' .. parent.args['species']
elseif parent.args['taxon'] then
local genus, species = string.match(parent.args['taxon'], "(%S+)%s(%S+)") -- %S: All characters not in %s
parent.args['genus'] = genus
parent.args['species'] = species
else
-- no valid taxon yet
--TODO need to get out of here or use 'name' or page title
end
if not parent.args['parent'] or parent.args['parent'] == "" then
parent.args['parent'] = parent.args['genus'] -- set parent to genus if not already
end
if not parent.args['name'] or parent.args['name'] == "" then -- if page name not set
parent.args['name'] = "''" .. parent.args['taxon'] .. "''"
end
-- set binomial : the speciesbox template seems to use genus and species before taxon name
-- "| binomial = ''{{Str letter/trim|{{{genus|{{{taxon|<includeonly>{{PAGENAME}}</includeonly><noinclude>Acacia</noinclude>}}}}}}}} {{{species|{{remove first word|{{{taxon|<includeonly>{{PAGENAMEBASE}}</includeonly><noinclude>Acacia aemula</noinclude>}}}}}}}}''"
-- documentation suggest taxon, which is followed here
parent.args['binomial'] = "''" .. parent.args['taxon'] .. "''"
parent.args['binomial_authority'] = parent.args['authority'] or nil
-- set species_name e.g. Panthera leo -> P. leo
parent.args['species_name'] = extinct .. "'''''" .. string.sub(parent.args['genus'],1,1) .. '. ' .. parent.args['species'] .. "'''''"
parent.args['display_taxa'] = parent.args['display_taxa'] -1
--shift authorities for speciesbox (two steps if subgenus set)
if parent.args['subgenus'] and parent.args['subgenus'] ~= "" then
parent.args['subgenus_authority'] = parent.args['parent_authority'] or ""
parent.args['authority'] = parent.args['grandparent_authority'] or ""
parent.args['parent_authority'] = parent.args['greatgrandparent_authority'] or ""
parent.args['grandparent_authority'] = parent.args['greatgreatgrandparent_authority'] or ""
parent.args['greatgrandparent_authority'] = parent.args['greatgreatgreatgrandparent_authority'] or ""
parent.args['greatgreatgrandparent_authority'] = parent.args['greatgreatgreatgreatgrandparent_authority'] or ""
else
-- note: must set to "" if 'parent_authority's don't exist, otherwise the value of 'authority' is unchanged
parent.args['authority'] = parent.args['parent_authority'] or ""
parent.args['parent_authority'] = parent.args['grandparent_authority'] or ""
parent.args['grandparent_authority'] = parent.args['greatgrandparent_authority'] or ""
parent.args['greatgrandparent_authority'] = parent.args['greatgreatgrandparent_authority'] or ""
parent.args['greatgreatgrandparent_authority'] = parent.args['greatgreatgreatgrandparent_authority'] or ""
end
-- set-up for subspecies or infraspecies
elseif parent.args['auto'] == "subspeciesbox" or parent.args['auto'] == "infraspeciesbox" then
--TODO set trinomial name
--[[According to subspsecisbox and infraspeciesbox documentation "The genus name, species name and subspecies name must be supplied separately: the combined taxon parameter cannot be used".
This means the trinomial can be constructed and the parameter ignored.
--]]
parent.args['parent'] = parent.args['genus'] -- genus must be supplied
local fullName = parent.args['genus'] .. ' ' .. parent.args['species']
parent.args['species_name']= "''[[" .. fullName .. '|'.. string.sub(parent.args['genus'],1,1) .. '. ' .. parent.args['species'] .. "]]''"
--local bold = "'''"
local separator = " " -- subspecies separator (default zoological)
if parent.args['subspecies'] then -- might not be if variety
if parent.args['auto'] == "infraspeciesbox" then separator = " ''<small>subsp.</small>'' " end
parent.args['subspecies_name']= extinct .. "'''''" .. string.sub(parent.args['genus'],1,1) .. '. ' .. string.sub(parent.args['species'],1,1) .. '.' .. separator .. parent.args['subspecies'] .. "'''''"
fullName = parent.args['genus'] .. ' ' .. parent.args['species'] .. separator .. parent.args['subspecies']
parent.args['trinomial'] = "''" .. fullName .. "''"
-- TODO if there is also a variety, this should be linked and not bolded (but would such an article exist)
end
if parent.args['variety'] or parent.args['varietas'] then
local vSeparator = " ''<small>var.</small>'' "
parent.args['variety']= parent.args['variety'] or parent.args['varietas'] -- will use variety as parameter
parent.args['variety_name']= extinct .. "'''''" .. string.sub(parent.args['genus'],1,1) .. '. ' .. string.sub(parent.args['species'],1,1) .. '.' .. vSeparator .. parent.args['variety'] .. "'''''"
parent.args['trinomial'] = "''" .. parent.args['genus'] .. ' ' .. parent.args['species'] .. vSeparator .. parent.args['variety'] .. "''"
if parent.args['subspecies'] then -- subspecies needs to linked instead of bold
fullName = parent.args['genus'] .. ' ' .. parent.args['species'] .. " ''subsp.'' " .. parent.args['subspecies']
parent.args['subspecies_name'] = "''[[" .. fullName .. '|' .. string.sub(parent.args['genus'],1,1) .. '. ' .. string.sub(parent.args['species'],1,1) .. '.' .. separator .. parent.args['subspecies'] .. "]]''"
end
end
parent.args['trinomial_authority'] = parent.args['authority'] or nil
if not parent.args['name'] or parent.args['name'] == "" then -- if page name not set
parent.args['name'] = parent.args['trinomial']
end
parent.args['display_taxa'] = (parent.args['display_taxa'] or 1) -2
--shift authorities for subspeciesbox (two steps or three if subgenus set)
if parent.args['subgenus'] and parent.args['subgenus'] ~= "" then
parent.args['subgenus_authority'] = parent.args['grandparent_authority'] or ""
parent.args['authority'] = parent.args['greatgrandparent_authority'] or ""
parent.args['parent_authority'] = parent.args['greatgreatgrandparent_authority'] or ""
parent.args['grandparent_authority'] = parent.args['greatgreatgreatgrandparent_authority'] or ""
parent.args['greatgrandparent_authority'] = parent.args['greatgreatgreatgreatgrandparent_authority'] or ""
parent.args['greatgreatgrandparent_authority'] = parent.args['greatgreatgreatgreatgreatgrandparent_authority'] or ""
else
parent.args['authority'] = parent.args['grandparent_authority'] or ""
parent.args['parent_authority'] = parent.args['greatgrandparent_authority'] or ""
parent.args['grandparent_authority'] = parent.args['greatgreatgrandparent_authority'] or ""
parent.args['greatgrandparent_authority'] = parent.args['greatgreatgreatgrandparent_authority'] or ""
parent.args['greatgreatgrandparent_authority'] = parent.args['greatgreatgreatgreatgrandparent_authority'] or ""
end
else
parent.args['parent'] = parent.args['taxon']
end
-- check taxonomy templates for automatic taxobox systtem
--{{#ifexist:Template:Taxonomy/{{{taxon|<includeonly>{{PAGENAME}}</includeonly><noinclude>Acacia</noinclude>}}}
-- |<noinclude><!--do nothing if it exists--></noinclude>
-- |{{Automatic taxobox/floating intro|taxon={{{taxon|{{PAGENAME}}}}} }}
-->}}
end
------------------------------------------------------------------------------------------
--[[ main function callable in Wikipedia via the #invoke command.
creates a taxobox-style infobox
creates main table and header section (with header, subheader and fossil ranges)
the creates addition rows for template arguments with following subsidiary functions:
p.addImageSection() - images and range maps
p.addStatusSection() - conservation status
p.addTaxonomySection() - listing of taxonomic heirarchy (manuel or using automatic taxonomy system)
p.addTaxonSection() - adds section with taxonomic information (binomial or trinomials; type genus or species; diversity)
p.addListSection() - section containing list if subdivisions, synonyms, included or excluded groups
--]]
p.main = function(frame)
--p.preprocessArgs(frame) -- preprocess frame arguments (handle alias and empty parameters?)
if parent.args['auto'] then
p.specialTaxoboxOptions(frame)
end
local name = parent.args['name'] or tostring( mw.title.getCurrentTitle() )
-- create table
local taxoboxTable = mw.html.create('table'):addClass('infobox'):addClass('biota')
:addClass('taxobox-paraphyletic')
local subheader = ''
if parent.args['subheader'] and parent.args['subheader'] ~= '' then
subheader='<div style="font-weight:normal;font-size:smaller;">'..parent.args['subheader']..'</div>'
end
local fossilRange = ''
if parent.args['fossil_range'] then
fossilRange = '<div><small>Temporal range: ' .. parent.args['fossil_range'] .. '</small></div>' -- use <div> rather than <br/>
end
local rowHeader = taxoboxTable:tag('tr'):tag('th'):attr('colspan', '2'):addClass('section-header')
:cssText('background:' .. p.getTaxoboxColor(frame) .. ';')
:wikitext(name .. subheader .. fossilRange)
-- add images
p.addImageSection(frame, taxoboxTable, 'image')
p.addImageSection(frame, taxoboxTable, 'image2')
--add conservation status
p.addStatusSection(frame, taxoboxTable, 'status')
p.addStatusSection(frame, taxoboxTable, 'status2')
-- add taxonomy table (uses entered parameters or automatic taxonomy system)
p.addTaxonomySection(frame, taxoboxTable)
-- add sections with binomial, trinomial, type species/genus (with authorities)
p.addTaxonSection(frame, taxoboxTable, 'binomial', 'Bionomial name')
p.addTaxonSection(frame, taxoboxTable, 'trinomial', 'Trionomial name')
p.addTaxonSection(frame, taxoboxTable, 'type_genus', 'Type genus')
--TODO type_ichnogenus, type_oogenus
p.addTaxonSection(frame, taxoboxTable, 'type_species', 'Type species')
--TODO type_ichnospecies, type_oospecies
p.addTaxonSection(frame, taxoboxTable, 'type_strain', 'Type strain')
-- add sections showing subdivisions (i.e. child taxa)
p.addListSection(frame, taxoboxTable, 'subdivision', parent.args['subdivision_ranks'] or 'Subdivisions')
p.addListSection(frame, taxoboxTable, 'possible_subdivision', parent.args['possible_subdivision_ranks'] or 'Possible subdivisions')
p.addTaxonSection(frame, taxoboxTable, 'diversity', 'Diversity') -- diversity section
-- show included groups (accepts 'included' or 'includes') [used for paraphyletic tax]
p.addListSection(frame, taxoboxTable, 'includes', 'Groups included')
p.addListSection(frame, taxoboxTable, 'included', 'Groups included')
--add range map (should this be below binomial/trinomial?)
p.addImageSection(frame, taxoboxTable, 'range_map')
-- show excluded groups (accepts 'excluded' or 'excludes') [used for paraphyletic tax]
local excludedHeaderText = '[[Cladistics|Cladistically]] included but traditionally excluded taxa'
p.addListSection(frame, taxoboxTable, 'excludes', excludedHeaderText)
p.addListSection(frame, taxoboxTable, 'excluded', excludedHeaderText)
-- add addition binomials, trinomial and range maps
p.addTaxonSection(frame, taxoboxTable, 'binomial2', 'Bionomial name (2)')
--p.addTaxonSection(frame, taxoboxTable, 'trinomial2', 'Trionomial name (2)')
p.addImageSection(frame, taxoboxTable, 'range_map2')
p.addTaxonSection(frame, taxoboxTable, 'binomial3', 'Bionomial name (3)')
--p.addTaxonSection(frame, taxoboxTable, 'trinomial3', 'Trionomial name (3)')
p.addImageSection(frame, taxoboxTable, 'range_map3')
p.addTaxonSection(frame, taxoboxTable, 'binomial4', 'Bionomial name (4)')
--p.addTaxonSection(frame, taxoboxTable, 'trinomial4', 'Trionomial name (4)')
p.addImageSection(frame, taxoboxTable, 'range_map4')
-- add synonyms section
p.addListSection(frame, taxoboxTable, 'synonyms', '[[Synonym (taxonomy)|Synonyms]]')
------------------add templateSyles and return taxobox table---------------------------
local src = "Template:Paraphyletic group/sandbox/styles.css" -- TemplateStyles file
return p.templateStyle( frame, src ) .. tostring(taxoboxTable)
end -- End the main function.
-------------------------------------------------------------------------------------------
--[[ function to add conservation sections
uses template {{taxobox/species|{{{status_system|}}}|{{{status|}}}|{{{status_ref|}}}|extinct={{{extinct|}}} }} }}
--]]
function p.addStatusSection(frame, taxoboxTable, status)
-- must use table container to handle template output
-- don't use header or content cells; the 'taxobox/species' template handles it
-- just need to add background colour on the row
if parent.args[status] and parent.args[status] ~= "" then
local row = taxoboxTable:tag('tr')
--:cssText('background:' .. p.getTaxoboxColor(frame) .. ';')
local cell = row:tag('td'):attr('colspan', '2')
:wikitext('\n{|\n|- style="background:' .. p.getTaxoboxColor(frame) .. ';"')
:wikitext('\n'..tostring(frame:expandTemplate{ title = 'taxobox/species',
args = {parent.args[status..'_system'] or '',
parent.args[status] or '',
parent.args[status..'_ref'] or '',
extinct=parent.args['extinct'] or ''
}
}))
:wikitext('\n|}')
end
end
--[[ function to add sections for taxonomic information with authorities ('_authority' suffix)
e.g. binomial, trinomial, type_species, type_genus; diversity also handled here
--]]
function p.addTaxonSection(frame, taxoboxTable, target, headerText)
-- return if we don't have value
if not parent.args[target] or parent.args[target] == '' then return end
local bold = "" -- variable for bolding binomial and trinomial (type genus/species etc are not bolded)
-- custom processing section
if target == 'binomial' or target == 'binomial2' or target == 'binomial3' or target == 'binomial4' then
headerText = '[[Binomial nomenclature|' .. headerText .. ']]'
bold ="'''"
elseif target == 'trinomial' or target == 'trinomial2' or target == 'trinomial3' or target == 'trinomial4' then
local trinomenLink = "Trinomen" -- for zoological or default
if parent.args['auto'] == "infraspeciesbox" then trinomenLink = "Infraspecific name (botany)" end -- regnum contains plant/fung/Archaeplastida"
headerText = '[['.. trinomenLink .. '|' .. headerText .. ']]'
bold ="'''"
else
--TODO is any handling needed for binomial2/3/4, diversity etc
headerText = '[[' .. headerText .. ']]'
end
if parent.args[target..'_ref'] then
headerText = headerText .. parent.args[target..'_ref'] .. '\n'
end
local contentString = '' -- content for the content cell
if target == 'diversity' and parent.args['diversity'] ~= "" then
if parent.args[target..'_link'] and parent.args[target..'_link'] ~= "" then
contentString = '\n[[' .. parent.args[target..'_link'] .. '|' .. parent.args[target] .. ']]\n'
else
contentString = '\n' .. parent.args[target] .. '\n'
end
else
-- taxon name and authority (binomial, type species, etc)
local authorityString = ''
if parent.args[target..'_authority'] then
authorityString = '<br/><small>' .. parent.args[target..'_authority'] .. '</small>\n'
end
contentString = '\n' .. bold .. parent.args[target] .. bold .. authorityString .. '\n'
end
-- add table rows
if parent.args[target] and parent.args[target] ~= '' then
local rowHeader = taxoboxTable:tag('tr')
rowHeader :tag('th')
:attr('colspan', '2')
:addClass('section-header')
:cssText('background:' .. p.getTaxoboxColor(frame) .. ';')
:wikitext( headerText )
local rowList = taxoboxTable:tag('tr')
rowList :tag('td')
:attr('colspan', '2')
:addClass('section-content')
:cssText('text-align:center;') --font-weight:bold;')
:wikitext( contentString )
end
end
----------------------------------------------------------------------------------------
--[[ function to produce sections for included taxa (subdivisions), synonyms, etc
- each consists of two rows containing a header and the content
- for paraphyletic groups it has include(d|s) and exclude(d|s) groups
- for general taxobox it has subdivision and possible subdivision (disabled here)
- any can be modified for other purposes (e.g. sisters) by changing the header taxt with a -text parameter
]]
function p.addListSection(frame, taxoboxTable, target, headerText)
local refString = ''
if parent.args[target..'_ref'] then
--add '_ref' option for 'synonym_ref' (the rest get it as a bonus) TODO check example
refString = parent.args[target..'_ref'] .. '\n'
end
-- add table rows
if parent.args[target] and parent.args[target] ~= ''then
local rowHeader = taxoboxTable:tag('tr')
rowHeader :tag('th')
:attr('colspan', '2')
:addClass('section-header')
:cssText('background:' .. p.getTaxoboxColor(frame) .. ';')
:wikitext(parent.args[target..'-text'] or headerText .. refString)
local rowList = taxoboxTable:tag('tr')
rowList :tag('td')
:attr('colspan', '2')
:addClass('section-content')
:wikitext('\n' .. parent.args[target] .. '\n' )
end
end
-----------------------------------------------------------------------------------------------
--[[ function to add image section
used for images at top and for range maps
--]]
function p.addImageSection(frame, taxoboxTable, target)
if parent.args[target] and parent.args[target] ~= '' then
local imageWidth = ''
local imageCaptionString = ''
if parent.args[target..'_caption'] then
imageCaptionString = '<br /><small><div style="text-align:center">'..parent.args[target ..'_caption']..'</div></small>'
end
local imageAltString = ''
if parent.args[target..'_alt'] then
imageAltString = parent.args[target..'_alt']
elseif parent.args[target..'_caption'] then
imageAltString = parent.args[target..'_caption'] -- use caption for alt text if none provided
end
local upright = parent.args['image_upright'] or 1
local InfoboxImage = require( 'Module:InfoboxImage' ) --, parent.args[target] )
local params = { args = { image = parent.args[target],
size = parent.args[target..'_width'],
sizedefault = 'frameless',
alt = imageAltString,
upright = parent.args[target..'_upright'] or upright
}
}
local image = InfoboxImage.InfoboxImage( params )
--local rowImage = taxoboxTable:tag('tr')
local rowImage = mw.html.create('tr')
rowImage:tag('td')
:attr('colspan', '2')
:addClass(target)
:wikitext(image)
:wikitext(imageCaptionString)
taxoboxTable:node(rowImage)
end
-- TODO handle upright
end
-----------------------------------------------------------------------
--[[ adds a table showing the taxonomy
uses either manual parameters or the automatic taxonomy system
currently adds a table inside a cell (like paraphyletic group) rather than just adding rows (core taxobox system)
--]]
function p.addTaxonomySection(frame, taxoboxTable)
local taxonomyHeader = '[[Taxonomy_(biology)|Scientific classification]]'
if parent.args['virus_group'] then
taxonomyHeader = '[[Virus classification]]'
else
-- TODO add other options
end
-- add symbol and link to taxonomy editor
local editLink = ''
if parent.args['auto'] then
local tooltip = parent.args['edit link'] or "Edit this classification"
editLink = '<span class="plainlinks" style="font-size:smaller; float:right; padding-right:0.4em; margin-left:-3em;">'
.. '[[File:Red Pencil Icon.png|link=Template:Taxonomy/' .. parent.args['parent']
.. '|' .. tooltip .. ']]</span>'
end
local rowTaxonomyHeader = taxoboxTable:tag('tr')
rowTaxonomyHeader:tag('th')
:attr('colspan', '2')
:addClass('section-header')
:cssText('background:' .. p.getTaxoboxColor(frame) .. ';')
:wikitext(taxonomyHeader)
:wikitext(editLink)
if parent.args['auto'] then
--p.addAutomaticTaxonomy(frame, taxoboxTable) -- use #invoke of module
p.addAutomaticTaxonomy2(frame, taxoboxTable) -- use expandTemplate
else
p.addManualTaxonomy(frame, taxoboxTable, data.taxonRanks) -- just add rows
end
end
-------------------------------------------------AUTOMATIC TAXONOMY (using invoke of module function) -----------
function p.addAutomaticTaxonomy(frame, taxoboxTable) -- use invoke of module function
--emulate template: {{taxobox/taxonomy}}
--which uses {{#invoke:Autotaxobox|taxoboxList
local bold_first = 'bold'
if parent.args['species'] then bold_first = 'link' end
local localFrame = frame -- this may not work as intended; it just creates another reference to the same table object
localFrame.args[1] = parent.args['parent'] or tostring( mw.title.getCurrentTitle() )
localFrame.args['display_taxa'] = (parent.args['display_taxa'] or 1 )
localFrame.args['authority'] = parent.args['parentauthority']
localFrame.args['parent_authority'] = parent.args['grantparent_authority']
localFrame.args['gparent_authority'] = parent.args['greatgrandparent_authority']
localFrame.args['ggparent_authority'] = parent.args['greatgreatgrandparent_authority']
localFrame.args['gggparent_authority'] = parent.args['greatgreatgreatgrandparent_authority']
localFrame.args['bold_first'] = bold_first
local autotaxa = require("Module:Autotaxobox")
local autoTaxonomy = autotaxa.taxoboxList(localFrame)
local row = taxoboxTable:tag('tr') -- incompatible with the templates called
:wikitext('\n|rank ||taxon name ')
:wikitext('\n'.. autoTaxonomy ) -- autoTaxonomy ends with a new row (|-)at end
:wikitext('\n|x ||y ') -- so add blank cells to complete extra row
-- this and affects spacing in taxonomy rows
--:wikitext('\n') -- spacing fine, newline for table wikitext
--[[ note: the output of {{taxobox/showtaxon}} [used by invoke:Autotaxobox|taxoboxList] ends with a newline token
this and affects spacing in taxonomy rows
leaving the empty row results in spurious paragraphs above the table
t his and affects spacing in taxonomy rows
it is present in current taxoboxes but not visible
results in
]]
return
end
----------------------------------------------------AUTOMATIC TAXONOMY (using template) ------------------------
function p.addAutomaticTaxonomy2(frame, taxoboxTable) -- use template and expand
--emulate template: {{taxobox/taxonomy}}
--which uses {{#invoke:Autotaxobox|taxoboxList
local bold_first = 'bold'
if parent.args['species_name'] then bold_first = 'link' end
-- defaults are now handled earlier
local templateArgs = { parent.args['parent'], -- or tostring( mw.title.getCurrentTitle() ),
parent.args['display_taxa'], -- or 1,
authority=parent.args['authority'],
parent_authority=parent.args['parent_authority'],
grandparent_authority=parent.args['grandparent_authority'],
greatgrandparent_authority=parent.args['greatgrandparent_authority'],
greatgreatgrandparent_authority=parent.args['greatgreatgrandparent_authority'],
bold_first
}
templateArgs['bold first']= bold_first
local autoTaxonomy = frame:expandTemplate{ title = 'taxobox/taxonomy', args = templateArgs }
--[[ NOTE: the auto taxonomy system uses wikitext for the table
mixing the mw.html and wikitext causes problems with table structure
therefore the automatic taxonomy is embedded as a table table
--]]
local row = taxoboxTable:tag('tr')
local cell = row:tag('td'):attr('colspan', '2')
cell:wikitext('\n{|\n|-')
--:wikitext('\n|rank \n|taxon name ')
:wikitext('\n|-\n' .. autoTaxonomy ) -- autoTaxonomy ends with a new row (|-)at end
if parent.args['species_name'] then -- so add species or blanks to complete extra row
--TODO add subgenus handling
cell:wikitext('\n|Species: ||' .. parent.args['species_name']) -- so add blank cells to complete extra row
if parent.args['subspecies_name'] then
cell:wikitext('\n|-\n|Subspecies: ||' .. parent.args['subspecies_name']) -- add subspecies/infraspecies
end
if parent.args['variety_name'] then
cell:wikitext('\n|-\n|Variety: ||' .. parent.args['variety_name']) -- add subspecies/infraspecies
end
--TODO handle authority (or do we need to repeat it as shown in binomial/trinomial?)
-- cell:wikitext(' authority')
else
--cell:wikitext('\n|x ||y ')
end
cell:wikitext('\n|}') -- end embedded table for automatic taxonomy
return
end
----------------------------------------MANUAL TAXONOMY--------------------------------
function p.addManualTaxonomy(frame,taxoboxTable, taxonRanks)
--local parent = mw.getCurrentFrame():getParent()
--local taxonRanks = data.taxonRanks
-- following {{Paraphyletic group, a table is add to the cell in the classification row
--local taxonomyTable = mw.html.create('table'):addClass('taxonomy')
-- an alternative is to dispense with the extra table and just add the rows (like taxobox/core),
-- which would need colspan=2 on other rows (DONE)
local taxonomyTable = taxoboxTable
for k,v in pairs(taxonRanks) do
if parent.args[v] then
local row = taxonomyTable:tag('tr')
local taxonName = parent.args[v]
local taxonRank = frame:expandTemplate{ title = "anglicise rank", args = {taxonRanks[k]} }
if taxonRanks[k] == "virus_group" then
taxonName = frame:expandTemplate{ title = "Virus group", args = {parent.args[v]} }
-- taxonRank = "Group" -- handled by anglicise rank template
end
local authorityString = ''
if parent.args[taxonRanks[k]..'_authority'] then
authorityString = '<br /><small>'..parent.args[taxonRanks[k]..'_authority']..'</small>'
end
row:tag('td'):wikitext(taxonRank..':')
row:tag('td'):wikitext('<span class="'.. taxonRanks[k] ..'">'..taxonName..'</span>'..authorityString)
--:wikitext('<br /><small>'..parent.args[taxonRanks[k]..'_authority']..'</small>')
end
end -- end for loop
return tostring(taxonomyTable)
end
-----------------------------------------------TAXOBOX COLOUR--------------------------------------
function p.getTaxoboxColor(frame)
if parent.args['auto'] then
--[[TODO add autotaxobox colours as option
(1) if color_as|colour_as|color as|colour as set, use template {{Taxobox colour|color_as}}
(2) use the auto taxonnomy tree to find colour: {{#invoke:Autotaxobox|taxoboxColour| }}
{{#invoke:Autotaxobox|taxoboxColour|{{{parent|{{{genus|{{first word|{{{taxon|{{PAGENAME}} }}
--]]
if (parent.args['color_as'] and parent.args['color_as'] ~= "") or
(parent.args['colour_as'] and parent.args['colour_as'] ~= "") or
(parent.args['color as'] and parent.args['color as'] ~= "") or
(parent.args['colour as'] and parent.args['colour as'] ~= "") then
local colorAs = ""
if parent.args['color_as'] then colorAs = parent.args['color_as'] end
if parent.args['colour_as'] then colorAs = parent.args['colour_as'] end
if parent.args['color as'] then colorAs = parent.args['color as'] end
if parent.args['colour as'] then colorAs = parent.args['colour as'] end
return frame:expandTemplate{ title = 'Taxobox colour', args = {colorAs} }
else
-- us #invoke:Autotaxobox|taxoboxColour|{{{parent}}} [parent should be set]
frame.args[1] = parent.args['parent']
return autotaxa.taxoboxColour(frame)
--return "palegreen"
end
else -- use manual taxobox colours
--{{Taxobox colour|{{{regnum|{{{virus_group|{{{unranked_phylum|{{{phylum|''[[Incertae sedis]]''}}}}}}}}}}}}}}
local group =''
if (parent.args['color_as'] and parent.args['color_as'] ~= "") then
group = parent.args['color_as']
elseif parent.args['regnum'] then
group = parent.args['regnum']
elseif parent.args['virus_group'] then
group = parent.args['virus_group']
elseif parent.args['unranked_phylum'] then
group = parent.args['unranked_phylum']
elseif parent.args['phylum'] then
group = parent.args['phylum']
else
group = "''[[Incertae sedis]]''" -- TODO check if this is what was desired
end
return frame:expandTemplate{ title = 'Taxobox colour', args = {group} }
end
end
function p.templateStyle( frame, src )
return frame:extensionTag( 'templatestyles', '', { src = src } );
end
-----------------------------------------
function p.test(frame)
if 1==1 then return end -- disable
local root = mw.html.create('table'):addClass('wikitable')
local row = root:tag('tr') -- add row using lua library
local cell = row:tag('td')
cell:wikitext('row A:')
cell = row:tag('td'):wikitext('content A')
row = root:tag('tr') -- add row using lua library
cell = row:tag('td'):wikitext('row B:')
cell = row:tag('td')
:wikitext('\n{|\n|-\n|P\n|Q\n|}') --but include a wikitxt table in one cell
-- :done()
-- row:done()
--root=mw.html:allDone()
root:wikitext('<tr><td>a</td><td>b</td></tr>') -- add row to root using html
root:wikitext('\n|-\n|X\n|Y\n') -- add row to root using wikitext (FAILS)
root:wikitext('\r|-\r|I\r|J\r') -- FAIL output |- |X |Y
root:wikitext(frame:preprocess('\n|-\n|U\n|V\n')) -- FAIL output |- |U |V
root:wikitext('<tr>\n|M\n|N\n</tr>')
row=root:tag('tr'):node('<td>c</td><td>d</td>') -- adds row successfully
row=root:tag('tr'):node('\n|Xc\n|Xd\n') -- fails to adds row
row = root:tag('tr') -- add another row using lua library
cell = row:tag('td'):wikitext('row C:')
cell = row:tag('td'):wikitext('content C')
root:node('\n{|\n|-\n|Xx\n|Yx\n|}\n') -- adds new table after
--frame:preprocess
return tostring(root)
--[[ CONCLUSION: cannot mix wikitext freely in the node structure
A complete wikitext table can be included in a cell (e.g. used for automatic taxonomy now)
An alternative is to use wikitext for the whole taxobox table
]]
end
-- All modules end by returning the variable containing its functions to Wikipedia.
return p