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|
CLINVAR_SIG = {}
CLINVAR_SIG['0'] = 'uncertain'
CLINVAR_SIG['1'] = 'not-provided'
CLINVAR_SIG['2'] = 'benign'
CLINVAR_SIG['3'] = 'likely-benign'
CLINVAR_SIG['4'] = 'likely-pathogenic'
CLINVAR_SIG['5'] = 'pathogenic'
CLINVAR_SIG['6'] = 'drug-response'
CLINVAR_SIG['7'] = 'histocompatibility'
CLINVAR_SIG['255'] = 'other'
CLINVAR_SIG['.'] = '.'
function intotbl(ud)
local tbl = {}
for i=1,#ud do
tbl[i] = ud[i]
end
return tbl
end
function clinvar_sig(vals)
local t = type(vals)
-- just a single-value
if(t == "string" or t == "number") and not string.find(vals, "|") ~= nil then
return CLINVAR_SIG[vals]
else
if not contains(t, "userdata") then
vals = {vals}
else
vals = intotbl(vals)
end
end
local ret = {}
for i=1,#vals do
if not contains(vals[i], "|") then
ret[#ret+1] = CLINVAR_SIG[vals[i]]
else
local invals = split(vals[i], "|")
local inret = {}
for j=1,#invals do
inret[#inret+1] = CLINVAR_SIG[invals[j]]
end
ret[#ret+1] = join(inret, "|")
end
end
return ret.concat(",")
end
|
