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<p>Hello Calum,</p>
<p><br>
</p>
<p>Can you please share what you have in your PERL5LIB? (echo
$PERL5LIB)<br>
</p>
<p><br>
</p>
<p><br>
</p>
<p>Kind Regards,</p>
<p>Diana <br>
</p>
<p><br>
</p>
<p><br>
</p>
<p><br>
</p>
<div class="moz-cite-prefix">On 30/06/2021 16:19, Tattersfield,Calum
(BIDMC - Friedman-Clin Trial Nephrol SF) wrote:<br>
</div>
<blockquote type="cite"
cite="mid:20210630152133.98B7B62B191_DC8BFDB@hh-mx3.ebi.ac.uk">
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<p>Bash on Linux version 7 with Perl/5.24.0. Attempting to access
1000 Genomes population frequencies using example script from
</p>
<p><br>
</p>
<p><a
href="https://www.ensembl.info/2015/06/18/1000-genomes-phase-3-frequencies-genotypes-and-ld-data/"
moz-do-not-send="true">https://www.ensembl.info/2015/06/18/1000-genomes-phase-3-frequencies-genotypes-and-ld-data/</a></p>
<p><br>
</p>
<p>The API version used is 104.</p>
<p><br>
</p>
<p>Error message is </p>
<p>'Bio::EnsEMBL::Variation::DBSQL::VCFCollectionAdaptor' cannot
be found.<br>
</p>
<p><br>
</p>
<p>Exception is </p>
<p>'Can't locate Bio/DB/HTS/Tabix.pm in @INC' </p>
<p><br>
</p>
<p>BEGIN failed--compilation aborted at
/src/ensembl-io/modules/Bio/EnsEMBL/IO/TabixParser.pm line 41.</p>
<p>BEGIN failed--compilation aborted at
/src/ensembl-io/modules/Bio/EnsEMBL/IO/Parser/VCF4Tabix.pm line
42.</p>
<p>Compilation failed in require at
/src/ensembl-variation/modules/Bio/EnsEMBL/Variation/VCFCollection.pm
line 82.<br>
BEGIN failed--compilation aborted at
/src/ensembl-variation/modules/Bio/EnsEMBL/Variation/VCFCollection.pm
line 82.<br>
Compilation failed in require at
/src/ensembl-variation/modules/Bio/EnsEMBL/Variation/DBSQL/VCFCollectionAdaptor.pm
line 98.<br>
BEGIN failed--compilation aborted at
/src/ensembl-variation/modules/Bio/EnsEMBL/Variation/DBSQL/VCFCollectionAdaptor.pm
line 98.<br>
Compilation failed in require at (eval 875) line 2.<br>
</p>
<p><br>
</p>
<p>I have been unable to clone tabix from github, but their page
says it has been moved to htslib. I made htslib following api
installation instructions here:<br>
</p>
<p><a
href="https://useast.ensembl.org/info/docs/api/api_installation.html"
moz-do-not-send="true">https://useast.ensembl.org/info/docs/api/api_installation.html</a></p>
<p><br>
</p>
<p>Thanks,</p>
<p>Calum<br>
</p>
<br>
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