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make indentation consistent
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jpalmer37 committed Jul 30, 2024
1 parent c48a430 commit 587d2d6
Showing 1 changed file with 3 additions and 3 deletions.
6 changes: 3 additions & 3 deletions modules/clade_calling.nf
Original file line number Diff line number Diff line change
Expand Up @@ -37,8 +37,8 @@ process clade_calling {
echo "WARNING: H3 subtype detected in the HA consensus file, but no H3 dataset provided. Please provide an H3 nextclade dataset with the --h3_dataset flag."
exit 10
else
dataset=${params.h3_dataset}
fi
dataset=${params.h3_dataset}
fi
elif [ `grep "H5" ${ha_consensus_seq}` ]; then
if [ ${params.h5_dataset} == "NO_FILE" ]; then
echo "WARNING: H5 subtype detected in the HA consensus file, but no H5 dataset provided. Please provide an H5 nextclade dataset with the --h5_dataset flag."
Expand All @@ -58,7 +58,7 @@ process clade_calling {
nextclade run \
--input-dataset \$dataset \
--input-dataset \$dataset \
--output-fasta=${sample_id}_nextclade.aligned.fasta.gz \
--output-json=${sample_id}_nextclade.json \
--output-ndjson=${sample_id}_nextclade.ndjson \
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