Module:Autotaxobox/sandbox

--[[************************************************************************* This module provides support to the automated taxobox system – the templates Automatic taxobox, Speciesbox, Subspeciesbox, Infraspeciesbox, etc.

In particular it provides a way of traversing the taxonomic hierarchy encoded in taxonomy templates (templates with names of the form "Template:Taxonomy/TAXON_NAME") without causing template expansion depth errors.
 * ]]

require('strict') local ext_func_make_tables = require ('Module:Sandbox/trappist the monk/taxonomy').make_tables; local TaxonItalics = require('Module:TaxonItalics') -- use a function from Module:TaxonItalics to italicize a taxon name local TableRow = '|- class="taxonrow" \n' local TableEnd = '|}\n' local p = {} -- functions made public local l = {} -- internal functions, kept separate local colour = '' -- colour for taxobox and taxonomy listings

--[[========================================================================= Limit the maximum depth of a taxonomic hierarchy that can be traversed; avoids excessive processing time and protects against incorrectly set up hierarchies, e.g. loops. The value can be obtained externally via

=
================================================================]] local MaxSearchLevels = 100

function p.getMaxSearchLevels return MaxSearchLevels end

--[[========================== taxoboxColour ================================ Determines the correct colour for a taxobox, by searching up the taxonomic hierarchy from the supplied taxon for the first taxon (other than 'incertae sedis') that sets a taxobox colour. It is assumed that a valid taxobox colour is defined using CSS rgb syntax. If no taxon that sets a taxobox colour is found, then 'transparent' is returned unless the taxonomic hierarchy is too deep, when the error colour is returned. Usage:

=
================================================================]] function p.taxoboxColour(frame) return p.getTaxoboxColour(frame, frame.args[1] or '') end

function p.getTaxoboxColour(frame, currTaxon) -- note that colour is global to this function; default is empty string local i = 1 -- count levels processed local searching = currTaxon ~= '' -- still searching for a colour? local foundICTaxon = false -- record whether 'incertae sedis' found while searching and i <= MaxSearchLevels do		local plainCurrTaxon, dummy = l.stripExtra(currTaxon) -- remove trailing text after / if string.lower(plainCurrTaxon) == 'incertae sedis' then foundICTaxon = true else local possibleColour = frame:expandTemplate{ title = 'Template:Taxobox colour', args = { plainCurrTaxon } } if string.sub(possibleColour,1,3) == 'rgb' then colour = possibleColour searching = false end end if searching then local ok, parent = p.getTaxonInfoItem(frame, currTaxon, 'parent') if ok and parent ~= '' then currTaxon = parent i = i + 1 else searching = false -- run off the top of the hierarchy or tried to use non-existent taxonomy template end end end if colour == '' then if foundICTaxon then colour = frame:expandTemplate{ title = 'Template:Taxobox colour', args = { 'incertae sedis' } } elseif searching then -- hierarchy exceeds MaxSearchLevels levels colour = frame:expandTemplate{ title = 'Template:Taxobox/Error colour', args = { } } else colour = 'transparent' end end return colour end

--= = = = = = = = = = = = = topLevelTaxon  = = = = = = = = = = = = = = = = Defines the correct top level taxa, one of which should terminate every taxonomic hierarchy encoded in taxonomy templates. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.topLevelTaxon(taxon) return taxon == 'Life' or taxon == 'Veterovata' or taxon == 'Ichnos' end

--[[=========================== taxoboxList ================================= Returns the rows of taxa in an automated taxobox, based on the taxonomic hierarchy for the supplied taxon. Usage:

=
================================================================]] function p.taxoboxList(frame) local currTaxon = frame.args[1] or '' if currTaxon ==  then return  end local displayN = (tonumber(frame.args['display_taxa']) or 1) + 1 local authTable = {} authTable[1] = frame.args['authority'] or '' authTable[2] = frame.args['parent_authority'] or '' authTable[3] = frame.args['gparent_authority'] or '' authTable[4] = frame.args['ggparent_authority'] or '' authTable[5] = frame.args['gggparent_authority'] or '' local boldFirst = frame.args['bold_first'] or 'link' -- values 'link' or 'bold' local virus = frame.args['virus'] or 'no' -- values 'yes' or 'no' local offset = tonumber(frame.args['offset'] or 0) -- adjust the authority table if 'authority' refers to a rank lower than the target taxon if offset ~= 0 then for i = 1, 5 do			local j = i + offset if j <= 5 then authTable[i] = authTable[j] else authTable[i] = '' end end end local taxonTable, taxonRankTable = l.makeTable(frame, currTaxon) local res = '' local topTaxonN = taxonTable.n	-- display all taxa above possible greatgreatgrandparent, without authority for i = topTaxonN, 6, -1 do res = res .. l.showTaxon(frame, taxonTable[i], taxonRankTable[i], topTaxonN==i, , displayN >= i, , virus) end -- display all taxa above possible parent, with authority if given for i = math.min(topTaxonN, 5), 2, -1 do res = res .. l.showTaxon(frame, taxonTable[i], taxonRankTable[i], topTaxonN==i, authTable[i], displayN >= i, '', virus) end -- display target taxon, always displayed and emboldened res = res .. l.showTaxon(frame, taxonTable[1], taxonRankTable[1], topTaxonN==1, authTable[1], true, boldFirst, virus) return res end

--= = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = Show one taxon row in a taxobox. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.showTaxon(frame, taxon, rank, isTopTaxon, auth, force, boldFirst, virus) -- it's an error if this is the top taxon and it's not a top level taxon (e.g. "Life") if isTopTaxon then if l.topLevelTaxon(taxon) then return '' -- don't display a top level taxon elseif (mw.title.new('Taxonomy/'..taxon, 'Template') or {}).exists then -- taxonomy template for this taxon has no parent specified return frame:expandTemplate{ title = 'Template:Create taxonomy', args = {taxon, msg='Taxonomy template does not specify a parent'} } .. '\n' .. TableRow else -- no taxonomy template for this taxon return frame:expandTemplate{ title = 'Template:Create taxonomy', args = {taxon, msg='Missing taxonomy template'} } .. '\n' .. TableRow end else -- if showing is not already forced, force if it's a principal rank or an authority is specified force = force or frame:expandTemplate{ title = 'Template:Principal rank', args = {rank} } == 'yes' or		       auth ~= '' if not force then -- if showing is still not already forced, force if the taxonomy template has 'always_display' set local ok, alwaysDisplay = p.getTaxonInfoItem(frame, taxon, 'always_display') force = alwaysDisplay == 'yes' or alwaysDisplay == 'true' end if force then local res = l.tableCell(frame:expandTemplate{ title = 'Template:Anglicise rank', args = {rank} } .. ':') local bold = 'no' if boldFirst == 'bold' then bold = 'yes' end if auth ~= '' then auth = ' ' .. auth .. ' '			end local res = res .. l.tableCell(l.getTaxonLink(frame, taxon, rank, bold, , , virus) .. auth) -- italic, abbreviated return res .. TableRow else return '' end end end

--[[========================== taxonomyList ================================= Returns the cells of the taxonomy table displayed on the right hand side of "Template:Taxonomy...." pages. Usage:

=
================================================================]] function p.taxonomyList(frame) local currTaxon = frame.args[1] or '' if currTaxon == '' then return '{|class="infobox biota"\n' .. TableRow .. l.tableCell('') .. l.tableCell('ERROR: no taxon supplied') .. TableEnd end local taxonTable, taxonRankTable = l.makeTable(frame, currTaxon) --	local taxonTable, taxonRankTable = ext_func_make_tables (currTaxon); local rankValTable = l.getRankTable local lastRankVal = 1000000 local orderOk = true -- check whether the taxonomy is for viruses; use already determined taxon colour if possible local virus = 'no' local taxoColour = colour if taxoColour == '' then if taxonTable[taxonTable.n] == 'Ichnos' or taxonTable[taxonTable.n] == 'Veterovata' then taxoColour = frame:expandTemplate{ title = 'Template:Taxobox colour', args = { taxonTable[taxonTable.n] } } else taxoColour = frame:expandTemplate{ title = 'Template:Taxobox colour', args = { taxonTable[taxonTable.n - 1] } } end end if taxoColour == frame:expandTemplate{ title = 'Template:Taxobox colour', args = { 'virus' } } then virus = 'yes' end -- add information message local res = 'Bold ranks show taxa that will be shown in taxoboxes because rank is principal or. \n'

-- start table res = res .. '{| class="infobox biota" style="text-align: left; font-size:100%"\n' .. TableRow .. '! colspan=4 style="text-align: center; background-color: '	           .. taxoColour .. '"|Ancestral taxa\n' -- deal first with the top level taxon; if there are no errors, it should be Life/Veterovata/Ichnos, which are -- not displayed local taxon = taxonTable[taxonTable.n]	if not l.topLevelTaxon(taxon) then local msg = 'Taxonomy template missing' if mw.title.new('Taxonomy/'..taxon, 'Template').exists then msg = 'Parent taxon needed' end res = res .. TableRow .. l.tableCell('colspan=2', frame:expandTemplate{title = 'Template:Create taxonomy', args = {taxon, msg = msg}}) end -- now output the rest of the table local currRankVal for i = taxonTable.n-1, 1, -1 do		-- check ranks are in right order in the hierarchy taxon = taxonTable[i] local rank = taxonRankTable[i] currRankVal = l.lookupRankVal(rankValTable, rank) if currRankVal then orderOk = currRankVal < lastRankVal if orderOk then lastRankVal = currRankVal end else orderOk = true end -- see if the row will be displayed in a taxobox; bold the rank if so		local boldRank = false local ok, alwaysDisplay = p.getTaxonInfoItem(frame, taxon, 'always_display') if ok and (alwaysDisplay == 'yes' or alwaysDisplay == 'true') then boldRank = true else boldRank = frame:expandTemplate{ title = 'Template:Principal rank', args = {rank} } == 'yes' end -- now return a row of the taxonomy table with anomalous ranks marked local errorStr = '' if not orderOk then errorStr = 'yes' end local link = l.getTaxonLink(frame, taxon, rank, , , '', virus) -- bold, italic, abbreviated res = res .. l.taxonomyListRow(frame, taxon, rank, link, boldRank, errorStr) end -- close table res = res .. TableEnd -- error-tracking for taxonomy templates -- if the last row has an anomalous rank, put the page in an error-tracking category local errCat1 = '' if not orderOk then errCat1 = '\n' end -- if the last row has a taxon name in the page name that does not match the link text, -- put the taxonomy template in a tracking category local dummy, linkText = p.getTaxonInfoItem(frame, taxon, 'link_text') local match = l.matchTaxonLink(taxon, linkText, currRankVal and currRankVal < rankValTable['genus']) local errCat2 = '' if not match then errCat2 = '\n' end if errCat1..errCat2 ~= '' then res = res .. frame:expandTemplate{ title = 'Template other', args = { errCat1..errCat2} } end return res end

-- = = = = = = = = = = = = = = taxonomyListRow = = = = = = = = = = = = = = Returns a single row of the taxonomy table displayed on the right hand side of "Template:Taxonomy...." pages. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.taxonomyListRow(frame, taxon, rank, link, boldRank, error) local res = '' if taxon ==  or rank ==  then return res end local baseTaxon, qualifier = l.stripExtra(taxon) -- if appropriate, make it clear that some taxa have been skipped via a ... row if qualifier == '/skip' then res = res .. TableRow .. l.tableCell('.....') .. l.tableCell('.....') end -- now generate a row of the table res = res .. TableRow local cellContent = '' local anglicizedRank = frame:expandTemplate{ title = 'Template:Anglicise rank', args = { rank } } if boldRank then cellContent = cellContent .. ' .. anglicizedRank .. :'	else cellContent = cellContent .. anglicizedRank .. ':'	end if error == 'yes' then cellContent = ' ' .. cellContent .. ' '	end res = res .. l.tableCell(cellContent) .. l.tableCell(' ' .. link .. ' ') .. l.tableCell(' ' .. qualifier .. ' ') .. l.tableCell(' ' .. frame:expandTemplate{ title = 'Template:Edit a taxon', args = { taxon } } .. ' ') return res end

--[[========================= callTaxonomyKey =============================== Prepares for, and then calls, Template:Taxonomy key to display a taxonomy template page. It does this by building up the information the template requires, following one 'same as' link, if required. Usage:

=
================================================================]] local PARENT = 1 local RANK = 2 local LINK_TARGET = 3 local LINK_TEXT = 4 local ALWAYS_DISPLAY = 5 local EXTINCT = 6 local SAME_AS = 7 local REFS = 8

function p.callTaxonomyKey(frame) local taxon = frame.args['taxon'] or '' local parent = frame.args['parent'] or '' local rank = frame.args['rank'] or '' local extinct = string.lower(frame.args['extinct']) or '' local alwaysDisplay = string.lower(frame.args['always_display']) or '' local linkTarget = frame.args['link_target'] or '' local linkText = frame.args['link_text'] or  -- this is the "raw" link text, and can be  local refs = frame.args['refs'] or '' local sameAsTaxon = frame.args['same_as'] or '' if sameAsTaxon ~= '' then -- try using the 'same as' taxon; it's an error if it doesn't exist local ok, sameAsInfoStr = pcall(frame.expandTemplate, frame, { title = 'Template:Taxonomy/' .. sameAsTaxon, args = {['machine code'] = 'all' } }) if ok then local sameAsInfo = mw.text.split(sameAsInfoStr, '$', true) --'same as' taxon's taxonomy template must not have a 'same as' link if sameAsInfo[SAME_AS] == '' then if parent == '' then parent = sameAsInfo[PARENT] end if rank == '' then rank = sameAsInfo[RANK] end if extinct == '' then extinct = string.lower(sameAsInfo[EXTINCT]) end if alwaysDisplay == '' then alwaysDisplay = string.lower(sameAsInfo[ALWAYS_DISPLAY]) end if linkTarget == '' then linkTarget = sameAsInfo[LINK_TARGET] end if linkText == '' then linkText = sameAsInfo[LINK_TEXT] end if refs == '' and parent == sameAsInfo[PARENT] then refs = sameAsInfo[REFS] end else return ' Error: attempt to follow two "same as" links :, but Template:Taxonomy/' .. sameAsTaxon .. ' also has a  parameter.' end else return frame:expandTemplate{ title = 'Template:Taxonomy key/missing template', args = {taxon=sameAsTaxon, msg='given as the value of '} } end end local link = linkTarget if linkText ~= '' and linkText ~= linkTarget then link = link .. "|" .. linkText end -- check consistency of extinct status; if this taxon is not extinct, parent must not be either local extinctError = 'no' if parent ~=  and (extinct ==  or extinct == 'no' or extinct == 'false') then local ok, parentExtinct = p.getTaxonInfoItem(frame, parent, 'extinct') if ok and (parentExtinct == 'yes' or parentExtinct == 'true') then extinctError = 'yes' end end return frame:expandTemplate{ title = 'Template:Taxonomy key', args = {taxon=taxon, parent=parent, rank=rank, extinct=extinct, always_display=alwaysDisplay, link_target=linkTarget, link=link, refs=refs, same_as=sameAsTaxon, extinct_error = extinctError} } end

--[[============================= showRefs ================================== Shows the refs field in a taxonomy template, handing incertae sedis taxa and using '–' for absent refs. Usage:

=
================================================================]] function p.showRefs(frame) local taxonName = frame.args[1] or '' local refs = frame.args[2] or '' return l.doShowRefs(taxonName, refs) end

--= = = = = = = = = = = = = = doShowRefs = = = = = = = = = = = = = = = = = Show the refs field in a taxonomy template. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.doShowRefs(taxonName, refs) if mw.text.split(taxonName, '/', true)[1] == 'Incertae sedis' then refs = 'not applicable (incertae sedis)' elseif refs == '' then refs = '–' end return refs end

--[[============================ taxonInfo ================================== Extracts and returns information from Template:Taxonomy/TAXON, following one 'same as' link if required. Usage: ITEM is one of: 'parent', 'rank', 'link target', 'link text', 'extinct', 'always display', 'refs', 'same as' or 'all'. If ITEM is not specified, the default is 'all' – all values in a single string separated by '$'.

=
================================================================]] function p.taxonInfo(frame) local taxon = frame.args[1] or '' local item = frame.args[2] or '' if item == '' then item = 'all' end local ok, info = p.getTaxonInfoItem(frame, taxon, item) return info end

--= = = = = = = = = = = getTaxonInfoItem = = = = = = = = = = = = = = = = = Utility function to extract an item of information from a taxonomy template, following one 'same as' link if required. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function p.getTaxonInfoItem(frame, taxon, item) local ok, info -- item == 'dagger' is a special case if item == 'dagger' then ok, info = p.getTaxonInfoItem(frame, taxon, 'extinct') if ok then if info == 'yes' or info == 'true' then info = '&dagger;' else info = '' end end -- item ~= 'dagger' else ok, info = pcall(frame.expandTemplate, frame, { title = 'Template:Taxonomy/' .. taxon, args = {['machine code'] = item } }) if ok then if info == '' then -- try 'same as' local sameAsTaxon = frame:expandTemplate{ title = 'Template:Taxonomy/' .. taxon, args = {['machine code'] = 'same as' } } if sameAsTaxon ~= '' then ok, info = pcall(frame.expandTemplate, frame, { title = 'Template:Taxonomy/' .. sameAsTaxon, args = {['machine code'] = item } }) end end end end if ok then -- if item is 'link_text', trim info and check whether '(?)' needs to be added if item == 'link_text' then -- there is a newline at the end of linkText when taxonomy template has "|link = LINK_TARGET|LINK_TEXT" info = mw.text.trim(info) if string.sub(taxon, -2) == '/?' and not string.find(info, '?', 1, true) then info = info .. ' (?) '			end end else info = 'Template:Taxonomy/' .. taxon .. '' --error indicator in code before conversion to Lua end return ok, info end

--[[============================ taxonLink ================================== Returns a wikilink to a taxon, if required including '†' before it and ' (?)' after it, and optionally italicized or bolded without a wikilink. Usage:

=
================================================================]] function p.taxonLink(frame) local taxon = frame.args['taxon'] or '' local extinct = string.lower(frame.args['extinct'] or '') local bold = frame.args['bold'] or '' local italic = frame.args['italic'] or '' local abbreviated = frame.args['abbreviated'] or '' local linkTarget = frame.args['link_target'] or '' local linkText = frame.args['link_text'] or frame.args['plain_link_text'] or '' --temporarily allow alternative args return l.makeLink(taxon, extinct, bold, italic, abbreviated, linkTarget, linkText) end

--= = = = = = = = = = = = = = getTaxonLink = = = = = = = = = = = = = = = = Internal function to drive l.makeLink. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.getTaxonLink(frame, taxon, rank, bold, italic, abbreviated, virus) local ok, extinct = p.getTaxonInfoItem(frame, taxon, 'extinct') if italic == '' then italic = frame:expandTemplate{ title = 'Template:Is italic taxon', args = { rank, virus = virus } } end local ok, linkTarget = p.getTaxonInfoItem(frame, taxon, 'link_target') local ok, linkText = p.getTaxonInfoItem(frame, taxon, 'link_text') return l.makeLink(taxon, extinct, bold, italic, abbreviated, linkTarget, linkText) end

--= = = = = = = = = = = = = = makeLink = = = = = = = = = = = = = = = = = = Actually make the link. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.makeLink(taxon, extinct, bold, italic, abbreviated, linkTarget, linkText) local dummy -- if link text is missing, try to find a replacement if linkText == '' then if string.find(taxon, 'Incertae sedis', 1, true) then linkText = "incertae sedis" linkTarget = 'Incertae sedis' else linkText, dummy = l.stripExtra(taxon) end end if linkTarget == '' then linkTarget = linkText end if italic == 'yes' then linkText = TaxonItalics.italicizeTaxonName(linkText, false, abbreviated=='yes') end local link = '' if bold == 'yes' then link = ' .. linkText .. '	else if linkTarget == linkText then link = linkText else link = linkTarget .. '|' .. linkText end link =  .. link ..  end if (extinct == 'yes' or extinct == 'true') and not string.find(link, '†', 1, true) then link = ' † ' .. link end if string.sub(taxon, -2) == '/?' and not string.find(link, '?', 1, true) then link = link .. ' (?) '	end return link end

--[[========================== showRankTable ================================ Returns a wikitable showing the ranks and their values as set up by getRankTable. Usage:

=
================================================================]] function p.showRankTable(frame) local rankTable = l.getRankTable local res = '{| class="wikitable sortable"\n|+ Ranks checked in taxonomy templates\n! Rank !! Shown as !! Value\n' for k, v in pairs(rankTable) do		local rankShown = frame:expandTemplate{ title = 'Template:Anglicise rank', args = { k } } res = res .. TableRow .. l.tableCell(k) .. l.tableCell(rankShown) .. l.tableCell(v) end return res .. TableEnd end

--[[============================== find ===================================== Returns the taxon above the specified taxon with a given rank. Usage:

=
================================================================]] function p.find(frame) local currTaxon = frame.args[1] or '' if currTaxon == '' then return ' no taxon supplied ' end local rank = frame.args[2] or '' if rank == '' then return ' no rank supplied ' end local inHierarchy = true -- still in the taxonomic hierarchy or off the top? local searching = true -- still searching while inHierarchy and searching do		local ok, parent = p.getTaxonInfoItem(frame, currTaxon, 'parent') if ok and parent ~= '' then currTaxon = parent local ok, currRank = p.getTaxonInfoItem(frame, currTaxon, 'rank') if currRank == rank then searching = false end else inHierarchy = false end end if inHierarchy and not searching then return currTaxon else return ' rank not found ' end end

--[[=============================== nth ===================================== External utility function primarily intended for use in checking and debugging. Returns the nth level above a taxon in a taxonomic hierarchy, where the taxon itself is counted as the first level. Usage:

=
================================================================]] function p.nth(frame) local currTaxon = frame.args[1] or '' if currTaxon == '' then return 'ERROR: no taxon supplied' end local n = tonumber(frame.args['n'] or 1) if n > MaxSearchLevels then return 'Exceeded maximum number of levels allowed (' .. MaxSearchLevels .. ')' end local i = 1 local inHierarchy = true -- still in the taxonomic hierarchy or off the top? while i < n and inHierarchy do		local ok, parent = p.getTaxonInfoItem(frame, currTaxon, 'parent') if ok and parent ~= '' then currTaxon = parent i = i + 1 else inHierarchy = false end end if inHierarchy then return currTaxon else return 'Level ' .. n .. ' is past the top of the taxonomic hierarchy' end end

--[[============================= nLevels =================================== External utility function primarily intended for use in checking and debugging. Returns number of levels in a taxonomic hierarchy, starting from the supplied taxon as level 1. Usage:

=
================================================================]] function p.nLevels(frame) local currTaxon = frame.args[1] or '' if currTaxon == '' then return 'ERROR: no taxon supplied' end local i = 1 local inHierarchy = true -- still in the taxonomic hierarchy or off the top? while inHierarchy and i < MaxSearchLevels do		local ok, parent = p.getTaxonInfoItem(frame, currTaxon, 'parent') if ok and parent ~= '' then currTaxon = parent i = i + 1 else inHierarchy = false end end if inHierarchy then return MaxSearchLevels .. '+'	else return i	end end

--[[============================= listAll =================================== External utility function primarily intended for use in checking and debugging. Returns a comma separated list of a taxonomic hierarchy, starting from the supplied taxon. Usage:

=
================================================================]] function p.listAll(frame) local currTaxon = frame.args[1] or '' if currTaxon == '' then return 'ERROR: no taxon supplied' end return l.doListAll(l.makeTable(frame, currTaxon)) end

function l.doListAll(taxonTable, taxonRankTable) local lst = taxonTable[1] .. '-' .. tostring(taxonRankTable[1]) for i = 2, taxonTable.n, 1 do lst = lst .. ', ' .. taxonTable[i] .. '-' .. taxonRankTable[i] end return lst end

--[[=========================== removeQualifier ================================ External utility function to remove a qualifier (any part after a "/") from a taxon name. Usage:

=
================================================================]] function p.removeQualifier(frame) local baseName, qualifier = l.stripExtra(frame.args[1]) return baseName end

--[[========================================================================= Internal functions

=
================================================================]]

--= = = = = = = = = = = = stripExtra = = = = = = = = = = = = = = = = = = = Internal utility function to strip off any extra parts of a taxon name, i.e. anything after a '/'. Thus 'Felidae/?' would be split into 'Felidae' and '?'. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.stripExtra(taxonName) local i = mw.ustring.find(taxonName, '/', 1, true) if i then return mw.ustring.sub(taxonName, 1, i-1), mw.ustring.sub(taxonName, i, -1) else return taxonName, '' end end

--= = = = = = = = = = = = splitTaxonName = = = = = = = = = = = = = = = = = Internal utility function to split a taxon name into its parts and return them. Possible formats include: = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.splitTaxonName(taxon) -- get any qualifier present local qualifier = '' local i = mw.ustring.find(taxon, '/', 1, true) if i then qualifier = mw.ustring.sub(taxon, i+1, -1) taxon = mw.ustring.sub(taxon, 1, i-1) end -- get any disambiguator or subgenus local disambig = '' local subgenus = '' i = mw.ustring.find(taxon, ' (', 1, true)	if i then		local parenTerm = mw.ustring.sub(taxon, i+2, -2)		taxon = mw.ustring.sub(taxon, 1, i-1)		local char1 = mw.ustring.sub(parenTerm, 1, 1)		if char1 == mw.ustring.lower(char1) then			disambig = parenTerm		else			subgenus = parenTerm		end	end	return taxon, disambig, subgenus, qualifier end
 * taxon
 * taxon (disambig)
 * taxon (Subgenus)
 * taxon/qualifier
 * combinations, e.g. taxon (disambig)/qualifier

--[[= = = = = = = = = = = = matchTaxonLink = = = = = = = = = = = = = = = = = Function to determine whether the taxon name derived from the name of the taxonomy template (passed in the parameter taxon) matches the link text (passed in the parameter linkText). The taxon name may have any of the formats:
 * baseTaxon/qualifier
 * baseTaxon (disambig)
 * baseTaxon (Subgenus) [distinguished by the capital letter]
 * a qualifier may be present after the previous two formats.

Examples of matches (baseTaxon ~ linkText): = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =]] function l.matchTaxonLink(taxon, linkText, rankBelowGenus) local dummy linkText, dummy = mw.ustring.gsub(linkText, "", ) -- remove any italic wikitext in the link text linkText, dummy = mw.ustring.gsub(linkText, '<.->', '') -- strip all tags used to format the link text linkText, dummy = mw.ustring.gsub(linkText, '"', '') -- remove any occurrences of " in the link text local baseTaxon, disambig, subgenus, qualifier = l.splitTaxonName(taxon) -- split up the taxon name baseTaxon, dummy = mw.ustring.gsub(linkText, '"', '') -- remove any occurrences of " in the base taxon name local match = linkText == baseTaxon or	             linkText == subgenus or linkText == baseTaxon .. ' (' .. subgenus .. ')' or linkText == mw.ustring.sub(baseTaxon, 1, 1) .. '. (' .. subgenus .. ')' or	             baseTaxon == 'Incertae sedis' or rankBelowGenus and linkText == mw.ustring.gsub(baseTaxon, '([A-Z]).- (.*)', '%1. %2') or 	             mw.ustring.find(qualifier, '?', 1, true) and mw.ustring.find(linkText, baseTaxon, 1, true) == 1 return match end
 * Pinus ~ Pinus
 * Pinus sect. Trifoliae ~ Pinus sect. Trifoliae
 * Pinus sect. Trifoliae ~ Pinus sect. Trifoliae [italic markers ignored]
 * Pinus sect. Trifoliae ~ P. sect. Trifoliae [abbreviated genus name matches]
 * Bombus (Pyrobombus) ~ Bombus (Pyrobombus)
 * Bombus (Pyrobombus) ~ B. (Pyrobombus)
 * Bombus (Pyrobombus) ~ Pyrobombus [link text may just be the subgenus]
 * Heteractinida ~ "Heteractinida" [double-quotes are ignored in link text]
 * "Heteractinida" ~ Heteractinida [double-quotes are ignored in base taxon name]
 * Incertae sedis ~ anything [link text is ignored for matching in this case]
 * Cetotheriidae with qualifier=? ~ Cetotheriidae (?)

--= = = = = = = = = = = = = makeTable = = = = = = = = = = = = = = = = = = = Internal utility function to return a table (array) constructed from a taxonomic hierarchy stored in "Template:Taxonomy/..." templates. TABLE.n holds the total number of taxa; TABLE[1]..TABLE[TABLE.n] the taxon names. The last taxon in the table will either (a) have a taxonomy template but with no parent given (e.g. 'Life') or (b) not have a taxonomy template. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.makeTable(frame, currTaxon) local taxonTable = {} local taxonRankTable = {} local ok, rank, parent local i = 1 local topReached = false -- reached the top of the taxonomic hierarchy? repeat taxonTable[i] = currTaxon ok, rank = p.getTaxonInfoItem(frame, currTaxon, 'rank') if ok then taxonRankTable[i] = string.lower(rank) else taxonRankTable[i] = '' end ok, parent = p.getTaxonInfoItem(frame, currTaxon, 'parent') if ok and parent ~= '' then currTaxon = parent i = i + 1 else topReached = true -- reached the top of the hierarchy or tried to use a non-existent taxonomy template end until topReached or i > MaxSearchLevels taxonTable.n = math.min(i, MaxSearchLevels) return taxonTable, taxonRankTable end

--= = = = = = = = = = = = getRankTable = = = = = = = = = = = = = = = = = = Internal utility function to set up a table of numerical values corresponding to 'Linnaean' ranks, with upper ranks having higher values. In a valid taxonomic hierarchy, a lower rank should never have a higher value than a higher rank. The actual numerical values are arbitrary so long as they are ordered. The ranks should correspond to those in Template:Anglicise ranks. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.getRankTable return { classis = 1400, cohort = 1100, divisio = 1500, domain = 1700, epifamilia = 802, familia = 800, forma = 100, genus = 600, grandordo = 1005, ['grandordo-mb'] = 1002, hyperfamilia = 805; infraclassis = 1397, infralegio = 1197, infraordo = 997, infraphylum = 1497, infraregnum = 1597, infratribus = 697, legio = 1200, magnordo = 1006, microphylum = 1495, micrordo = 995, mirordo = 1004, ['mirordo-mb'] = 1001, nanophylum = 1494, nanordo = 994, ordo = 1000, parafamilia = 800, parvclassis = 1396; -- same as subterclassis parvordo = 996, phylum = 1500, regnum = 1600, sectio = 500, --series = 400, used too inconsistently to check species = 300, subclassis = 1398, subcohort = 1098, subdivisio = 1498, subfamilia = 798, subgenus = 598, sublegio = 1198, subordo = 998, subphylum = 1498, subregnum = 1598, subsectio = 498, subspecies = 298, subterclassis = 1396; -- same as parvclassis subtribus = 698, superclassis = 1403, supercohort = 1103, superdivisio = 1503, superdomain = 1703, superfamilia = 803, superlegio = 1203, superordo = 1003, superphylum = 1503, superregnum = 1603, supersectio = 503, supertribus = 703, tribus = 700, varietas = 200, zoodivisio = 1300, zoosectio = 900, zoosubdivisio = 1298, zoosubsectio = 898, } end

--= = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = Function to look up the arbitrary numerical value of a rank in a rank value table. "Ichno" and "oo" ranks are not stored separately, so if present the prefix is removed. = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.lookupRankVal(rankValTable, rank) local rankVal = rankValTable[rank] if not rankVal then -- may be an "ichno" or "oo" rank; try removing "ichno-" or "oo-" local baseRank = mw.ustring.gsub(mw.ustring.gsub(rank, '^ichno', ), '^oo', ) if baseRank == 'rdo' then baseRank = 'ordo' end -- if an "ichno" or "oo" rank, lower rank value slightly so it is ok below the base rank rankVal = rankValTable[baseRank] if rankVal then rankVal = rankVal - 0.1 end end return rankVal end

--= = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = function l.tableCell(arg1, arg2) local text, style if arg2 then style = arg1 text = arg2 else style = '' text = arg1 end local res = '|' if style ~= '' then res = res .. style .. '|'	end return res .. text .. '\n' end

return p