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Include all possible ranks #9

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Merged
merged 1 commit into from
May 2, 2023
Merged

Include all possible ranks #9

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21 changes: 15 additions & 6 deletions back_end/refresh_data.py
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Original file line number Diff line number Diff line change
Expand Up @@ -126,6 +126,7 @@ def get_date(target_destination):
)
) == 0


#
print('Extracting data (this would take some time)')
with open('sql/rows.sql', 'r') as file:
Expand Down Expand Up @@ -170,12 +171,20 @@ def list_flip(original_list):
])
line_number = 0
specify_ranks = [rank.lower() for rank in [
'Domain', 'Infrakingdom', 'Superphylum', 'Infradivision', 'Cohort',
'Kingdom', 'Subkingdom', 'Division', 'Subdivision', 'Phylum',
'Subphylum', 'Superclass', 'Class', 'Subclass', 'Infraclass', 'Superorder',
'Order', 'Suborder', 'Infraorder', 'Superfamily', 'Family', 'Subfamily',
'Tribe', 'Subtribe', 'Genus', 'Subgenus', 'Section', 'Subsection',
'Species', 'Subspecies', 'Variety', 'Subvariety', 'Forma', 'Subforma'
'Domain', 'Realm',
'Kingdom', 'Subkingdom', 'Infrakingdom',
'Superphylum', 'Phylum', 'Subphylum', 'Infraphylum', 'Parvphylum',
'Superdivision', 'Division', 'Subdivision', 'Infradivision', 'Parvdivision',
'Gigaclass', 'Megaclass', 'Superclass', 'Class', 'Subclass', 'Infraclass', 'Subterclass',
'Superorder', 'Order', 'Suborder', 'Infraorder', 'Parvorder', 'Nanorder',
'Section', 'Subsection',
'Superfamily', 'Epifamily', 'Family', 'Subfamily',
'Supertribe', 'Tribe', 'Subtribe', 'Infratribe',
'Genus', 'Subgenus', 'Infrageneric name',
'Series', 'Subseries',
'Species', 'Subspecies', 'Infraspecific name',
'Variety', 'Subvariety',
'Form', 'Subform', 'Forma specialis',
]]

with open(rows_data, 'r') as rows_file:
Expand Down
3 changes: 1 addition & 2 deletions back_end/sql/rows.sql
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Original file line number Diff line number Diff line change
Expand Up @@ -29,5 +29,4 @@ SELECT `NameUsage`.`ID` AS 'tsn',
IFNULL(`Reference`.`citation`,'') AS 'source'
FROM `NameUsage`
LEFT JOIN `Reference` ON `Reference`.`ID` = `nameReferenceID`
WHERE `status` IN ('', 'accepted')
AND `rank` IN ('kingdom', 'subkingdom', 'phylum', 'subphylum', 'superclass', 'class', 'subclass', 'infraclass', 'superorder', 'order', 'suborder', 'infraorder', 'superfamily', 'family', 'subfamily', 'tribe', 'subtribe', 'genus', 'subgenus', 'section', 'subsection', 'species', 'subspecies', 'variety', 'subvariety')
WHERE `status` IN ('', 'accepted')