oddb2xml 2.0.6 → 2.0.7
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- checksums.yaml +8 -8
- data/Gemfile.lock +1 -1
- data/History.txt +13 -0
- data/dokumentation_calc.textile +30 -24
- data/lib/oddb2xml/builder.rb +32 -19
- data/lib/oddb2xml/calc.rb +10 -1
- data/lib/oddb2xml/compositions_syntax.rb +220 -151
- data/lib/oddb2xml/parslet_compositions.rb +148 -323
- data/lib/oddb2xml/version.rb +1 -1
- data/spec/calc_spec.rb +19 -13
- data/spec/composition_syntax_spec.rb +39 -40
- data/spec/data/swissmedic_package-galenic.xlsx +0 -0
- data/spec/parslet_spec.rb +320 -213
- data/spec/spec_helper.rb +0 -1
- metadata +2 -2
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@@ -38,18 +38,49 @@ class CompositionParser < Parslet::Parser
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rule(:radio_isotop) { match['a-zA-Z'].repeat(1) >> lparen >> digits >> str('-') >> match['a-zA-Z'].repeat(1-3) >> rparen >>
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((space? >> match['a-zA-Z']).repeat(1)).repeat(0)
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} # e.g. Xenonum (133-Xe) or yttrii(90-Y) chloridum zum Kalibrierungszeitpunkt
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-
rule(:ratio_value) { match['0-9
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+
rule(:ratio_value) { match['0-9:\-\.,'].repeat(1) >> space?} # eg. ratio: 1:1, ratio: 1:1.5-2.4., ratio: 1:0.68-0.95, 1:4,1
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# handle stuff like acidum 9,11-linolicum or 2,2'-methylen-bis(6-tert.-butyl-4-methyl-phenolum) specially. it must contain at least one a-z
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rule(:umlaut) { match(['éàèèçïöäüâ']) }
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rule(:identifier_D12) { match['a-zA-Z'] >> match['0-9'].repeat(1) }
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-
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-
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-
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-
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-
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-
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-
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46
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+
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# TODO: why do we have to hard code these identifiers?
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rule(:fix_coded_identifiers) {
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str("2,2'-methylen-bis(6-tert.-butyl-4-methyl-phenolum)") |
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50
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str('A + B') |
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51
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str('CRM 197') |
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str('F.E.I.B.A.') |
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53
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str('LA ') >> digit.repeat(1,2) >> str('% TM') |
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str('TM:') | str('&') |
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str('ethanol.') |
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str('poloxamerum 238') |
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str('polysorbatum ') >> digit >> digit
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}
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+
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# TODO: Sind diese Abkürzung wirklich Teil eines Substanznamens?
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rule(:identifier_abbrev_with_comma) {
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str('aquos') |
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str('ca.') |
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str('deklar.') |
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str('spag.') |
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str('spec.') |
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str('spp.') |
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str('ssp.') |
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str('var.')
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}
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rule(:fix_coded_doses) {
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digit >> digit.maybe >> space >> str('per centum ') >> str('q.s.').maybe |
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str('50/50') |
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str('1g/9.6 cm²') |
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str('9 g/L 5.4 ml')
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}
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rule(:identifier) { fix_coded_identifiers |
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identifier_abbrev_with_comma |
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fix_coded_doses |
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str('q.s.') |
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81
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identifier_D12 |
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identifier_without_comma |
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identifier_with_comma
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84
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}
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85
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86
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rule(:identifier_with_comma) {
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@@ -65,64 +96,70 @@ class CompositionParser < Parslet::Parser
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rule(:words_nested) { one_word.repeat(1) >> in_parent.maybe >> space? >> one_word.repeat(0) }
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# dose
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# 150 U.I. hFSH et 150 U.I. hLH
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68
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-
rule(:dose_unit)
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-
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-
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-
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72
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-
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73
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-
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-
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75
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-
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76
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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90
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-
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-
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-
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-
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-
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95
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-
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96
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-
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-
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-
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-
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100
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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rule(:dose_unit) {
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(
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str('cm²') |
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str('g/dm²') |
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str('g/l') |
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str('g/L') |
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str('% V/V') |
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str('µg/24 h') |
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str('µg/g') |
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str('µg') |
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str('ng') |
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str('guttae') |
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str('mg/g') |
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str('mg/ml') |
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str('MBq/ml') |
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str('MBq') |
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str('CFU') |
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str('mg') |
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str('Mg') |
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str('kJ') |
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str('G') |
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str('g') |
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str('l') |
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str('µl') |
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str('U. Ph. Eur.') |
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str('ml') |
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str('µmol') |
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str('mmol/l') |
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str('mmol') |
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str('Mio CFU') |
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str('Mio U.I.') |
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str('Mio U.') |
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str('Mio. U.I.') |
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str('Mio. U.') |
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str('Mia. U.I.') |
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str('Mia. U.') |
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str('S.U.') |
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str('U. Botox') |
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str('U.I. hFSH') |
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str('U.I. hCG') |
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str('U.I. hLH') |
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str('U.I.') |
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str('U./ml') |
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str('U.K.I.') |
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str('U.') |
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str('Mia.') |
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str('Mrd.') |
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str('% m/m') |
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str('% m/m') |
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str('%')
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).as(:unit)
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}
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rule(:qty_range) { (number >> space? >> (str('+/-') | str(' - ') | str(' -') | str('-') | str('±') ) >> space? >> number).as(:qty_range) }
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rule(:qty_unit) { dose_qty >> (space >> dose_unit).maybe }
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rule(:dose_qty) { number.as(:qty) }
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-
rule(:min_max) {
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rule(:min_max) { (str('min.') | str('max.') | str('ca.') | str('<') ) >> space? }
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# 75 U.I. hFSH et 75 U.I. hLH
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rule(:dose_fsh) { qty_unit >> space >> str('et') >> space >> qty_unit.as(:dose_right) }
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rule(:dose_per) { (digits >> str('/') >> digits).as(:qty)}
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rule(:dose) { dose_fsh |
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dose_per |
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( min_max.maybe >>
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-
( (qty_range >> (space >> dose_unit).maybe) | (qty_unit | dose_qty |dose_unit)) >> space? )
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( (qty_range >> (space >> dose_unit).maybe) | (qty_unit | dose_qty |dose_unit)) >> space? ) >>
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str('pro dosi').maybe >> space?
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}
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rule(:dose_with_unit) { min_max.maybe >>
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dose_fsh |
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@@ -140,45 +177,53 @@ class CompositionParser < Parslet::Parser
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str('conserv.:') |
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str('color.:')
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}
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+
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# Match Wirkstoffe like E 270
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rule(:lebensmittel_zusatz) { str('E').as(:lebensmittel_zusatz) >> space >>
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(digits >> match['(a-z)'].repeat(0,3)).as(:digits) >>
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(space >> dose.as(:dose_lebensmittel_zusatz)).maybe >> space?
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-
}
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-
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-
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}
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# DER: 1:4 or DER: 3.5:1 or DER: 6-8:1 or DER: 4.0-9.0:1'
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rule(:der_identifier) { str('DER:') >> space >> digit >> match['0-9\.\-:'].repeat }
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rule(:der) { (der_identifier).as(:substance_name) >> space? >> dose.maybe.as(:dose) }
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150
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rule(:forbidden_in_substance_name) {
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-
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-
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-
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-
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-
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str('ratio:') |
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-
str('Mio ') |
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-
str('et ') |
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str('ut ') |
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-
str('Beutel: ') |
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str('ut alia: ') |
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-
str('pro dosi') |
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-
str('pro capsula') |
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-
str('pro vitroe') |
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+
min_max |
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+
useage |
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+
excipiens_identifiers |
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194
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pro_identifiers |
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corresp_substance_label |
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(digits.repeat(1) >> space >> str(':')) | # match 50 %
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str(', corresp.') |
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str('Beutel: ') |
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str('Mio ') |
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str('ad emulsionem') |
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201
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str('ad globulos') |
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167
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-
str('ana ') |
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168
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-
str('ana partes') |
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str('partes') |
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170
202
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str('ad pulverem') |
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str('ad q.s. ') |
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str('ad solutionem') |
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str('ad suspensionem') |
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str('ana partes') |
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str('ana ') |
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str('aqua ad ') |
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str('aqua q.s. ') |
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str('corresp. ca.,') |
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str('et ') |
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str('excipiens') |
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str('partes') |
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str('pro capsula') |
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str('pro dosi') |
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str('pro vitroe') |
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str('q.s. ad ') |
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218
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str('q.s. pro ') |
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-
str('
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-
str('
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-
str('
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219
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str('ratio:') |
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220
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str('ut alia: ') |
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str('ut ')
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}
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rule(:name_without_parenthesis) {
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(
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(str('(') | forbidden_in_substance_name).absent? >>
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-
(radio_isotop | str('> 1000') | str('> 500') | identifier.repeat(1)) >>
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(radio_isotop | str('> 1000') | str('> 500') | identifier.repeat(1) >> str('.').maybe) >>
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space?
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).repeat(1)
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}
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@@ -192,116 +237,123 @@ class CompositionParser < Parslet::Parser
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192
237
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(forbidden_in_substance_name.absent? >> (identifier.repeat(1) | part_with_parenthesis | rparen) >> space?).repeat(0)
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}
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rule(:substance_name) { (
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195
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-
der |
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name_with_parenthesis |
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name_without_parenthesis
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) >>
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str('pro dosi').maybe >> space?
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}
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201
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-
rule(:simple_substance) { substance_name.as(:substance_name) >> space? >> dose.as(:dose)
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rule(:simple_substance) { substance_name.as(:substance_name) >> space? >> dose.maybe.as(:dose)}
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202
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rule(:simple_subtance_with_digits_in_name_and_dose) {
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203
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-
substance_lead.maybe >> space? >>
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substance_lead.maybe.as(:more_info) >> space? >>
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(name_without_parenthesis >> space? >> ((digits.repeat(1) >> (str(' %') | str('%')) | digits.repeat(1)))).as(:substance_name) >>
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space >> dose_with_unit.as(:dose)
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}
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252
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-
rule(:pro_dose) { str('pro') >> space >> dose.as(:dose_corresp) }
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-
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211
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-
# TODO: what does ut alia: impl?
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212
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rule(:substance_ut) {
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(substance_lead.maybe >> simple_substance).as(:substance_ut) >>
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(space? >> (str('pro dosi ut ') | str('ut ') ) >>
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215
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space? >> str('alia:').absent? >>
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216
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-
(excipiens |
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217
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-
substance_name >> space? >> str('corresp.') >> space? >> substance_lead.maybe >> space? >> simple_substance |
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218
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-
simple_substance
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219
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-
).as(:for_ut)
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220
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-
).repeat(1) >>
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221
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-
space? # >> str('alia:').maybe >> space?
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222
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-
}
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223
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-
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224
253
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rule(:substance_more_info) { # e.g. "acari allergeni extractum 5000 U.:
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225
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-
(str('ratio:').absent? >> (identifier|digits) >> space?).repeat(1)
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254
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+
(str('ratio:').absent? >> (identifier|digits) >> space?).repeat(1) >> space? >> (str('U.:') | str(':')| str('.:')) >> space?
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255
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}
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256
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228
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-
rule(:
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229
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-
str('
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230
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str('aqua q.s. ad
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231
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-
str('aqua
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232
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-
str('aqua q.s. ad
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233
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-
str('q.s. ad
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257
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rule(:pro_identifiers) {
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258
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+
str('ut aqua ad iniectabilia q.s. ad emulsionem pro ') |
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259
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+
str('aqua ').maybe >> str('ad iniectabilia q.s. ad solutionem pro ') |
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260
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+
str('aqua ').maybe >> str('ad solutionem pro ') |
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261
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+
str('aqua ').maybe >> str('q.s. ad emulsionem pro ') |
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262
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str('aqua ').maybe >> str('q.s. ad gelatume pro ') |
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263
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+
str('aqua ').maybe >> str('q.s. ad solutionem pro ') |
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264
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str('aqua ').maybe >> str('q.s. ad suspensionem pro ') |
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234
265
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str('doses pro vase ') |
|
|
235
|
-
str('pro vase ') |
|
|
236
266
|
str('excipiens ad emulsionem pro ') |
|
|
237
267
|
str('excipiens ad pulverem pro ') |
|
|
238
|
-
str('
|
|
239
|
-
|
|
268
|
+
str('excipiens ad solutionem pro ') |
|
|
269
|
+
str('pro vase ') |
|
|
270
|
+
str('q.s. ad pulverem pro ')
|
|
240
271
|
}
|
|
272
|
+
rule(:excipiens_dose) { pro_identifiers.as(:excipiens_description) >> space? >> dose.as(:dose) >> space? >> ratio.maybe.as(:ratio) >>
|
|
273
|
+
space? >> str('corresp.').maybe >> space? >> dose.maybe.as(:dose_corresp)
|
|
274
|
+
}
|
|
241
275
|
|
|
242
|
-
rule(:
|
|
276
|
+
rule(:excipiens_identifiers) {
|
|
277
|
+
str('ad globulos') |
|
|
278
|
+
str('ad pulverem') |
|
|
279
|
+
str('ad solutionem') |
|
|
280
|
+
str('aether q.s.') |
|
|
281
|
+
str('ana partes') |
|
|
282
|
+
str('aqua ad iniectabilia q.s. ad solutionem') |
|
|
283
|
+
str('aqua ad iniectabilia') |
|
|
284
|
+
str('aqua q.s. ad') |
|
|
243
285
|
str('excipiens pro compresso obducto') |
|
|
244
286
|
str('excipiens pro compresso') |
|
|
245
287
|
str('excipiens pro praeparatione') |
|
|
246
288
|
str('excipiens') |
|
|
247
|
-
str('ad pulverem') |
|
|
248
289
|
str('pro charta') |
|
|
249
|
-
str('ad globulos') |
|
|
250
|
-
str('aqua ad iniectabilia q.s. ad solutionem') |
|
|
251
|
-
str('solvens (i.v.): aqua ad iniectabilia') |
|
|
252
|
-
str('ad solutionem') |
|
|
253
|
-
str('q.s. ad') |
|
|
254
|
-
str('aqua q.s. ad') |
|
|
255
|
-
str('saccharum ad') |
|
|
256
|
-
str('aether q.s.') |
|
|
257
|
-
str('pro vitro') |
|
|
258
|
-
str('aqua ad iniectabilia') |
|
|
259
290
|
str('pro praeparatione') |
|
|
291
|
+
str('pro vitro') |
|
|
292
|
+
str('q.s. ad') |
|
|
260
293
|
str('q.s. pro praeparatione') |
|
|
261
|
-
str('
|
|
262
|
-
|
|
263
|
-
( any.repeat(0) )
|
|
294
|
+
str('saccharum ad') |
|
|
295
|
+
str('solvens (i.v.): aqua ad iniectabilia')
|
|
264
296
|
}
|
|
265
297
|
|
|
266
|
-
rule(:
|
|
267
|
-
|
|
268
|
-
|
|
269
|
-
|
|
270
|
-
|
|
298
|
+
rule(:excipiens) { substance_lead.maybe.as(:more_info) >> space? >>
|
|
299
|
+
( excipiens_dose | excipiens_identifiers.as(:excipiens_description)) >>
|
|
300
|
+
space? >> excipiens_dose.maybe.as(:dose_2) >>
|
|
301
|
+
any.repeat(0)
|
|
302
|
+
}
|
|
303
|
+
|
|
304
|
+
rule(:substance_lead) { useage >> space? |
|
|
305
|
+
str('Beutel:') >> space? |
|
|
306
|
+
str('residui:') >> space? |
|
|
307
|
+
str('mineralia:') >> str(':') >> space? |
|
|
308
|
+
str('Solvens:') >> space? |
|
|
271
309
|
substance_more_info
|
|
272
310
|
}
|
|
273
311
|
rule(:corresp_substance_label) {
|
|
274
312
|
str(', corresp. ca.,') |
|
|
275
313
|
str('corresp. ca.,') |
|
|
314
|
+
str('corresp.,') |
|
|
276
315
|
str('corresp.') |
|
|
277
|
-
str('corresp., ') |
|
|
278
316
|
str(', corresp.')
|
|
279
317
|
}
|
|
318
|
+
rule(:ratio) { str('ratio:') >> space >> ratio_value }
|
|
319
|
+
|
|
320
|
+
rule(:solvens) { (str('Solvens:') | str('Solvens (i.m.):'))>> space >> (any.repeat).as(:more_info) >> space? >>
|
|
321
|
+
(substance.as(:substance) >> str('/L').maybe).maybe >>
|
|
322
|
+
any.maybe
|
|
323
|
+
}
|
|
324
|
+
# Perhaps we could have some syntax sugar to make this more easy?
|
|
325
|
+
#
|
|
326
|
+
def tag(opts={})
|
|
327
|
+
close = opts[:close] || false
|
|
328
|
+
end
|
|
329
|
+
|
|
330
|
+
# TODO: what does ut alia: impl?
|
|
331
|
+
rule(:substance_ut) {
|
|
332
|
+
(space? >> (str('pro dosi ut ') | str('ut ') ) >>
|
|
333
|
+
space? >> str('alia:').absent? >>substance
|
|
334
|
+
) >>
|
|
335
|
+
space?
|
|
336
|
+
}
|
|
280
337
|
|
|
281
338
|
rule(:corresp_substance) {
|
|
282
339
|
(corresp_substance_label) >> space? >>
|
|
283
340
|
(
|
|
284
|
-
|
|
285
|
-
dose.as(:dose_corresp_2)
|
|
341
|
+
substance |
|
|
342
|
+
dose.as(:dose_corresp_2) |
|
|
343
|
+
excipiens.as(:excipiens)
|
|
286
344
|
)
|
|
287
345
|
}
|
|
288
346
|
|
|
289
|
-
rule(:ratio) { str('ratio:') >> space >> ratio_value }
|
|
290
|
-
|
|
291
|
-
rule(:solvens) { (str('Solvens:') | str('Solvens (i.m.):'))>> space >> (any.repeat).as(:solvens) >> space? >>
|
|
292
|
-
(substance.as(:substance) >> str('/L').maybe).maybe >>
|
|
293
|
-
any.maybe
|
|
294
|
-
}
|
|
295
347
|
rule(:substance) {
|
|
296
|
-
|
|
297
|
-
|
|
298
|
-
|
|
299
|
-
|
|
300
|
-
|
|
301
|
-
|
|
302
|
-
|
|
303
|
-
|
|
304
|
-
|
|
348
|
+
(
|
|
349
|
+
simple_subtance_with_digits_in_name_and_dose |
|
|
350
|
+
der |
|
|
351
|
+
substance_lead.maybe.as(:more_info) >> space? >> lebensmittel_zusatz |
|
|
352
|
+
substance_lead.maybe.as(:more_info) >> space? >> simple_substance >> str('pro dosi').maybe
|
|
353
|
+
).as(:substance) >>
|
|
354
|
+
(space? >> str(', ').maybe >> ratio.maybe).as(:ratio) >>
|
|
355
|
+
space? >> corresp_substance.maybe.as(:chemical_substance) >>
|
|
356
|
+
space? >> substance_ut.repeat(0).as(:substance_ut)
|
|
305
357
|
}
|
|
306
358
|
rule(:histamin) { str('U = Histamin Equivalent Prick').as(:histamin) }
|
|
307
359
|
rule(:praeparatio){ ((one_word >> space?).repeat(1).as(:description) >> str(':') >> space?).maybe >>
|
|
@@ -310,9 +362,8 @@ class CompositionParser < Parslet::Parser
|
|
|
310
362
|
((identifier >> space?).repeat(1).as(:more_info) >> space?).maybe
|
|
311
363
|
}
|
|
312
364
|
rule(:substance_separator) { (str(', et ') | comma | str('et ') | str('ut alia: ')) >> space? }
|
|
313
|
-
rule(:one_substance) { (praeparatio | histamin | substance)
|
|
314
|
-
|
|
315
|
-
rule(:all_substances) { (one_substance >> substance_separator.maybe).repeat(1) }
|
|
365
|
+
rule(:one_substance) { (praeparatio | histamin | substance) >> space? >> ratio.as(:ratio).maybe >> space? }
|
|
366
|
+
rule(:all_substances) { (one_substance >> substance_separator.maybe).repeat(1) >> space? >> excipiens.as(:excipiens).maybe}
|
|
316
367
|
rule(:composition) { all_substances }
|
|
317
368
|
rule(:long_labels) {
|
|
318
369
|
str('Praeparatio sicca cum solvens: praeparatio sicca:') |
|
|
@@ -344,6 +395,8 @@ class CompositionParser < Parslet::Parser
|
|
|
344
395
|
label
|
|
345
396
|
}
|
|
346
397
|
rule(:corresp_label) {
|
|
398
|
+
str('aqua ') |
|
|
399
|
+
str('excipiens ') |
|
|
347
400
|
str('doses ') |
|
|
348
401
|
str('Pulver: ') |
|
|
349
402
|
str('Diluens: ') |
|
|
@@ -357,11 +410,27 @@ class CompositionParser < Parslet::Parser
|
|
|
357
410
|
}
|
|
358
411
|
rule(:corresp_line) { corresp_label >> any.repeat(1).as(:corresp) |
|
|
359
412
|
((label_id >> label_separator >> space? >> str('et ').maybe).repeat(1) >> any.repeat(1)).as(:corresp)
|
|
413
|
+
}
|
|
414
|
+
rule(:corresp_line_neu) { corresp_label >> any.repeat(1).as(:corresp) }
|
|
415
|
+
|
|
416
|
+
rule(:multiple_et_line) {
|
|
417
|
+
((label_id >> label_separator >> space? >> (str('pro usu') |str('et '))).repeat(1) >> any.repeat(1)).as(:corresp)
|
|
360
418
|
}
|
|
361
419
|
|
|
420
|
+
rule(:polvac) { label_id.as(:label) >> label_separator >> space? >> composition.as(:composition) >> space? >> str('.').maybe >> space? }
|
|
421
|
+
|
|
422
|
+
rule(:label_composition) { label >> space? >> composition.as(:excipiens) >> space? >> str('.').maybe >> space? }
|
|
423
|
+
rule(:label_comment_excipiens) { label >> space? >> excipiens.as(:excipiens) >> space? >> str('.').maybe >> space? }
|
|
424
|
+
|
|
362
425
|
rule(:expression_comp) {
|
|
426
|
+
corresp_line_neu |
|
|
363
427
|
leading_label.maybe >> space? >> composition.as(:composition) >> space? >> str('.').maybe >> space? |
|
|
364
|
-
|
|
428
|
+
multiple_et_line |
|
|
429
|
+
label_composition |
|
|
430
|
+
polvac |
|
|
431
|
+
label_comment_excipiens |
|
|
432
|
+
excipiens.as(:composition) |
|
|
433
|
+
space.repeat(3)
|
|
365
434
|
}
|
|
366
435
|
root :expression_comp
|
|
367
436
|
end
|