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Quick fix to improve warnings #1736

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Aug 8, 2024
Merged

Quick fix to improve warnings #1736

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5 changes: 0 additions & 5 deletions modules/Bio/EnsEMBL/VEP/Config.pm
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Original file line number Diff line number Diff line change
Expand Up @@ -705,11 +705,6 @@ sub new {
$config->{cache} = 1;
}

# throw a warning for GENCODE basic if assembly is not GRCh38
if (defined($config->{'gencode_basic'}) && $config->{'gencode_basic'} && defined($config->{'assembly'}) && lc($config->{'assembly'}) ne 'grch38') {
printf("WARNING: --gencode_basic option is currently only available for human on the GRCh38 assembly\n");
}

# throw a warning for GENCODE primary if assembly is not GRCh38
if (defined($config->{'gencode_primary'}) && $config->{'gencode_primary'} && defined($config->{'assembly'}) && lc($config->{'assembly'}) ne 'grch38') {
printf("WARNING: --gencode_primary option is currently only available for human on the GRCh38 assembly\n");
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