ncbi_genome_download.sh
· 415 B · Bash
Sin formato
for f in batches/batch_*; do
base=$(basename "$f")
out="zips/${base}.zip"
echo "Downloading $f -> $out"
datasets download genome accession --inputfile "$f" \
--include genome,gff3,gbff \
--filename "$out"
# 解压到独立目录（也可以最后统一解压）
mkdir -p "genomes/$base"
unzip -q "$out" -d "genomes/$base"
# 关键：主动降速，避免触发 NCBI 限制
sleep 10
done
| 1 | for f in batches/batch_*; do |
| 2 | base=$(basename "$f") |
| 3 | out="zips/${base}.zip" |
| 4 | |
| 5 | echo "Downloading $f -> $out" |
| 6 | datasets download genome accession --inputfile "$f" \ |
| 7 | --include genome,gff3,gbff \ |
| 8 | --filename "$out" |
| 9 | |
| 10 | # 解压到独立目录（也可以最后统一解压） |
| 11 | mkdir -p "genomes/$base" |
| 12 | unzip -q "$out" -d "genomes/$base" |
| 13 | |
| 14 | # 关键：主动降速，避免触发 NCBI 限制 |
| 15 | sleep 10 |
| 16 | done |