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Hi Nicolas,<br>
<br>
Locale is exactly the same on both machines.<br>
<br>
LANG=en_US.UTF-8<br>
LANGUAGE=en_US<br>
LC_CTYPE="en_US.UTF-8"<br>
LC_NUMERIC=es_ES.UTF-8<br>
LC_TIME=es_ES.UTF-8<br>
LC_COLLATE="en_US.UTF-8"<br>
LC_MONETARY=es_ES.UTF-8<br>
LC_MESSAGES="en_US.UTF-8"<br>
LC_PAPER=es_ES.UTF-8<br>
LC_NAME=es_ES.UTF-8<br>
LC_ADDRESS=es_ES.UTF-8<br>
LC_TELEPHONE=es_ES.UTF-8<br>
LC_MEASUREMENT=es_ES.UTF-8<br>
LC_IDENTIFICATION=es_ES.UTF-8<br>
LC_ALL=<br>
<br>
Tried export LC_ALL=C and I still got warnings on machine2. Anyways,
thank you for your help.<br>
<br>
Regards,<br>
Guillermo.<br>
<br>
<div class="moz-cite-prefix">On 12/06/15 15:36, Nicolas Thierry-Mieg
wrote:<br>
</div>
<blockquote cite="mid:557AE06F.5000101@imag.fr" type="cite">On
06/12/2015 03:21 PM, Guillermo Marco Puche wrote:
<br>
<blockquote type="cite">Hi Will,
<br>
<br>
This is the command:
<br>
<br>
* variant_effect_predictor.pl -i example_GRCh38.vcf -o
<br>
annotation_example_GRCh38.vcf -database -hgvs -cache
-dir_cache
<br>
/home/gmarco/ensembl_80/cache
<br>
<br>
I've tried on another machine (machine2) and I dont' get the
error.
<br>
Gonna try to re-install the exact same version of Perl on both
machines.
<br>
If this continues failing then I've no idea what's going on.
<br>
Tried both version of bioperl 1.2.3 and 1.6.1 on both machines
and both
<br>
work good on machine2 and show warnings on machine1.
<br>
Tried both versions of tabix 0.2.5 and 0.2.6 on both machines
and both
<br>
work good on machine2 and show warnings on machine1.
<br>
<br>
* Machine1 Warnings:
<br>
This is perl 5, version 14, subversion 4 (v5.14.4) built for
<br>
x86_64-linux
<br>
<br>
* Machine2 NO warnings:
<br>
This is perl 5, version 18, subversion 2 (v5.18.2) built for
<br>
x86_64-linux-gnu-thread-multi (with 41 registered patches,
see perl
<br>
-V for more detail)
<br>
<br>
Maybe it's not a perl issue. Then I've no clue what could be
causing the
<br>
issue.
<br>
</blockquote>
<br>
what does "locale" say on the two machines? I've had strange bugs
before that were caused by locale settings, as for example GNU
"sort" behaves differently depending on that!
<br>
No idea if this could come into play with VEP, but try export
LC_ALL=C before running the command.
<br>
<br>
<br>
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</blockquote>
<br>
<div class="moz-signature"><br>
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