Add support for the non-free netMHC tool family #71
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PR checklist
CHANGELOG.md
is updateddocs
is updatedAdditions
This patch adds support for the non-free 3rd party tools NetMHC, NetMHCpan, NetMHCII and NetMHCIIpan. Since the tools' licenses do not allow for redistribution of the software, the user has to provide the software tarball which can be obtained from the upstream website.
Changes
epaa.py
: Make tool name comparison case insensitive. Unfortunately, the method names aren't uniform w.r.t. upper / lower case letters among the netMHC family of tools.main.nf
: Convertparams.tools
to a groovy list before parsing. The previous.contains()
calls were applied on strings, which worked fine for the previously used tools, but since e.g.netmhc
is a substring ofnetmhcpan
it would clash with the newly added tools