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In the case of any difficulties, it is highly recommended to instead use a docker deployment  (cluster installations may require singularity instead, which is somewhat still a work-in-progress)

CNVkit

Requires Python 2.7 or later.

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Additional dynamic libraries (such as libxml2.so) may be missing and we can provide a copy appropriate for the target OS.

HTSeq

Requires Python 2.7 or 3.4 or above

On startup Flow attempts to install using pip

Variant Effect Predictor

This is a compiled Perl script (so it has no direct dependency on Perl itself) we have had one report (istem.fr) of it failing to run. 

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