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move CDS warning to debug #196

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merged 2 commits into from
Oct 21, 2024
Merged

move CDS warning to debug #196

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7a0862a
move CDS warning to debug
nlouwen Oct 18, 2024
f51d952
fix test
nlouwen Oct 21, 2024
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6 changes: 3 additions & 3 deletions big_scape/genbank/cds.py
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Original file line number Diff line number Diff line change
Expand Up @@ -251,11 +251,11 @@ def parse(
not correct_translation
and not parent_gbk.source_type == SOURCE_TYPE.MIBIG
):
logging.warning(
logging.debug(
"CDS (%s, %s) from %s:"
" translation provided by antiSMASH and generated by biopython"
" do not match, consider checking if there is something"
" special with this CDS",
" do not match, likely due to fuzzy starts/ends."
" Consider checking if there is something special with this CDS",
nt_start,
nt_stop,
parent_gbk.path,
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2 changes: 1 addition & 1 deletion test/genbank/test_cds.py
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Original file line number Diff line number Diff line change
Expand Up @@ -542,7 +542,7 @@ def test_parse_translation_antismash_larger_mismatch(self):
"GADYGLCRVYRNEPWHFELRPEAIEHGCPPLYADPSHDPXXXX"
]

with self.assertLogs(level=logging.INFO) as cm:
with self.assertLogs(level=logging.DEBUG) as cm:
logging.info("nonsense")
CDS.parse(feature, parent_gbk)

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