我找到了答案。您需要同时添加--cache和--dir_cache参数：
我已经这样安装了：
conda install ensembl-vep=105.0-0
然后安装了这样的人工缓存：
vep_install -a cf -s homo_sapiens -y GRCh38 -c /mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/refs/vep —CONVERT
但我无法用任何命令运行它，例如
vep --dir_cache "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/conda/envs/bioinfo/share/ensembl-vep-105.0-0"
-i "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/cohort.norm_recalibrated.vcf"
-o "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/vep_output.txt”
这会给出一条关于下载缓存的错误消息：
IMPORTANT INFORMATION:
The VEP can read gene data from either a local cache or local/remote databases.
或者这个：
vep --cache
-i "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/cohort.norm_recalibrated.vcf"
-o "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/vep_output.txt”
这给出了错误：
MSG: ERROR: Cache directory /mnt/gpfs/home/skgtmdf/.vep/homo_sapiens not found
我想没有人能为我指明正确的方向吗？
vep --cache --dir_cache "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/conda/envs/bioinfo/share/ensembl-vep-105.0-0"
-i "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/cohort.norm_recalibrated.vcf"
-o "/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/vep_output.txt"