title: How to run ensembl-vep in conda
body: <p>I’ve installed like so:</p>
  <pre><code>conda install ensembl-vep=105.0-0
  </code></pre>
  <p>And then installed the human cache like this:</p>
  <pre><code>vep_install -a cf -s homo_sapiens -y GRCh38 -c /mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/refs/vep —CONVERT
  </code></pre>
  <p>But I can’t get it to run with any commands, e.g.</p>
  <pre><code>vep --dir_cache &quot;/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/conda/envs/bioinfo/share/ensembl-vep-105.0-0&quot; \
     -i &quot;/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/cohort.norm_recalibrated.vcf&quot; \
     -o &quot;/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/vep_output.txt”
  </code></pre>
  <p>This gives an error message about downloading caches:</p>
  <pre><code>IMPORTANT INFORMATION:
  The VEP can read gene data from either a local cache or local/remote databases.
  </code></pre>
  <p>Or this one:</p>
  <pre><code>vep --cache \
     -i &quot;/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/cohort.norm_recalibrated.vcf&quot; \
     -o &quot;/mnt/gpfs/live/rd01__/ritd-ag-project-rd018o-mdflo13/data/test/manual/results/variants/vep_output.txt”
  </code></pre>
  <p>This gives the error:</p>
  <pre><code>MSG: ERROR: Cache directory /mnt/gpfs/home/skgtmdf/.vep/homo_sapiens not found
  </code></pre>
  <p>I don’t suppose anyone would be able to point me in the right direction?</p>