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<span id="mailbox-conversation"><div>Hi dev team,</div>
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<div>When running v76 of VEP (with GRCh37), I'm getting a bunch of these errors (command below):</div>
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<div>substr outside of string at /humgen/atgu1/fs03/konradk/ensembl-tools-release-76/scripts/variant_effect_predictor/Bio/EnsEMBL/Variation/Utils/Sequence.pm line 511.</div>
<div>Use of uninitialized value $ref_allele in string eq at /humgen/atgu1/fs03/konradk/ensembl-tools-release-76/scripts/variant_effect_predictor/Bio/EnsEMBL/Variation/Utils/Sequence.pm line 514.</div>
<div id="mb-reply">Use of uninitialized value in concatenation (.) or string at /humgen/atgu1/fs03/konradk/ensembl-tools-release-76/scripts/variant_effect_predictor/Bio/EnsEMBL/Variation/Utils/Sequence.pm line 643.</div>
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<div id="mb-reply">perl ./ensembl-tools-release-76/scripts/variant_effect_predictor/variant_effect_predictor.pl --everything --vcf --allele_number --no_stats --cache --offline --dir ./vep/ --force_overwrite --fasta ./vep/homo_sapiens/76_GRCh37/Homo_sapiens.GRCh37.75.dna.primary_assembly.fa --tabix -i ./test/test.vcf.gz -o test.vep.vcf.gz --gencode_basic</div>
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<div id="mb-reply">Here's one line it fails on, for instance:</div>
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<div id="mb-reply"><div>1 69995 . G C 282.63 VQSRTrancheSNP99.60to99.80 AC=1</div></div>
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<div id="mb-reply">Thanks!</div>
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<br>-Konrad</div>
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