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Hi,
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<p>I was <span>trying to build a cache from a GTF file that corresponds to a water buffalo (no ensemble database/annotation available, only available in NCBI Genome database) and was following the underwritten commands according to your website (<a previewremoved="true" id="LPlnk283259" href="http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html" class="OWAAutoLink">http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html</a>):</span></p>
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<p><span><span>perl gtf2vep.pl -i GCF_000471725.1_UMD_CASPUR_WB_2.0_genomic.revised.gtf -f GCF_000471725.1_UMD_CASPUR_WB_2.0_genomic.fa -d 87-s buffalo</span></span></p>
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<div>perl variant_effect_predictor.pl -offline -i varfiltered_F3_M3_merged_0h_7h_sorted_samtools_with_variant_type_without_INDEL_bcftools_snpSift.vcf --species buffalo -o varfiltered_F3_M3_merged_0h_7h_sorted_samtools_with_variant_type_without_INDEL_bcftools_snpSift_VEP.vcf<br>
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<p><span>But, I am getting a following error:</span></p>
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<div>ERROR: Cache directory /nfs_netapp/s0928794/.vep/buffalo not found<br>
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<p><span>I checked '<span>/nfs_netapp/s0928794/.vep/</span>' and indeed there was no buffalo folder there. Kindly let me know what am I missing and what should I do so that I can successfully use VEP to annotate my variants that I have for water buffalo.<br>
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<span>Regards,<br>
Prasun Dutta, M.Sc. (Bioinformatics)<br>
PhD Student, Developmental Biology Division (Hume Group)<br>
The Roslin Institute, <span>The University of Edinburgh, Scotland, UK</span><br>
M: +447438743406</span><span class="HOEnZb adL"><font color="#888888"><a id="LPNoLP" title="Ctrl+Click or tap to follow the link" href="tel:%2B447438743406" value="+447438743406" target="_blank"></a></font></span>
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