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Update pyard-status to show all the tables. #263

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Merged
merged 1 commit into from
Aug 17, 2023
Merged

Update pyard-status to show all the tables. #263

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7 changes: 7 additions & 0 deletions pyard/mappings.py
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Original file line number Diff line number Diff line change
Expand Up @@ -42,6 +42,13 @@
"who_alleles",
]

serology_tables = [
"serology_broad_split_mapping",
"serology_mapping",
]

misc_tables = ["cwd2", "shortnulls", "v2_mapping", "mac_codes"]

ARSMapping = namedtuple("ARSMapping", ars_mapping_tables)
CodeMappings = namedtuple("CodeMappings", code_mapping_tables)
AlleleGroups = namedtuple("AlleleGroups", allele_tables)
19 changes: 11 additions & 8 deletions scripts/pyard-status
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Original file line number Diff line number Diff line change
Expand Up @@ -30,6 +30,8 @@ import pyard.mappings
from pyard import db, data_repository
from pyard.misc import get_data_dir

LONG_DASH_LINE_LENGTH = 45


def get_latest_imgt_version() -> int:
"""
Expand Down Expand Up @@ -70,7 +72,7 @@ if __name__ == "__main__":
db_connection, db_filename = db.create_db_connection(
data_dir, imgt_version, ro=True
)
print("-" * 43)
print("=" * LONG_DASH_LINE_LENGTH)
if imgt_version == "Latest":
db_version = data_repository.get_db_version(db_connection)
print(f"IMGT DB Version: {imgt_version} ({db_version})")
Expand All @@ -90,19 +92,20 @@ if __name__ == "__main__":
file_size = get_file_size(db_filename)
print(f"File: {db_filename}")
print(f"Size: {file_size:.2f}MB")
print("-" * 43)
print(f"|{'Table Name':20}|{'Rows':20}|")
print(f"|{'-' * 41}|")
for table in (
print("-" * LONG_DASH_LINE_LENGTH)
print(f"|{'Table Name':30}|{'Rows':>12}|")
print(f"|{'-' * (LONG_DASH_LINE_LENGTH - 2)}|")
for table in sorted(
pyard.mappings.ars_mapping_tables
+ pyard.mappings.code_mapping_tables
+ pyard.mappings.allele_tables
+ ["mac_codes"]
+ pyard.mappings.serology_tables
+ pyard.mappings.misc_tables
):
if db.table_exists(db_connection, table):
total_rows = db.count_rows(db_connection, table)
print(f"|{table:20}|{total_rows:20}|")
print(f"|{table:30}|{int(total_rows):12,d}|")
else:
print(f"MISSING: {table} table")
print("-" * 43)
print("-" * LONG_DASH_LINE_LENGTH)
db_connection.close()