def _build_cds_db():
"""
Download a FASTA file containing CDS sequences for each known transcript,
return sqlite3 database mapping ensembl transcript IDs to CDS sequences.
"""
return fetch_fasta_db(table_name="CDS",
fasta_filename=CDS_TRANSCRIPT_FILE,
download_url=CDS_TRANSCRIPT_URL,
key_column='id',
value_column='seq',
subdir="immuno")
def _build_protein_db():
"""
Downloads a FASTA file containing amino acid sequences of human
transcripts, return sqlite3 database mapping ensembl protein IDs to
amino acid sequences.
"""
return fetch_fasta_db(table_name="PROTEIN",
fasta_filename=PROTEIN_TRANSCRIPT_FILE,
download_url=PROTEIN_TRANSCIPT_URL,
key_column='id',
value_column='seq',
subdir="immuno")
def _build_cds_db():
"""
Download a FASTA file containing CDS sequences for each known transcript,
return sqlite3 database mapping ensembl transcript IDs to CDS sequences.
"""
return fetch_fasta_db(
table_name = "CDS",
fasta_filename = CDS_TRANSCRIPT_FILE,
download_url = CDS_TRANSCRIPT_URL,
key_column = 'id',
value_column = 'seq',
subdir = "immuno")
def _build_protein_db():
"""
Downloads a FASTA file containing amino acid sequences of human
transcripts, return sqlite3 database mapping ensembl protein IDs to
amino acid sequences.
"""
return fetch_fasta_db(
table_name = "PROTEIN",
fasta_filename = PROTEIN_TRANSCRIPT_FILE,
download_url = PROTEIN_TRANSCIPT_URL,
key_column = 'id',
value_column = 'seq',
subdir = "immuno")
def test_download_fasta_db():
db = fetch_fasta_db("DNA", URL)
assert db is not None
