1 File::Path qw(make_path)
1 File::Temp qw/ :POSIX /
1 File::Temp qw/ tempfile tempdir /
1 Getopt::Long qw(:config bundling); ## Getopt is a Pelr module enabling automatic parsing otf the command-line arguments
1 IPC::Open3
1 LWP
1 LWP::UserAgent
1 Math::CDF
1 MCE::Shared
1 mysql
1 Parallel::ForkManager
1 Pod::Markdown
1 POSIX qw(log10)
1 POSIX qw(sysconf _PC_CHOWN_RESTRICTED)
1 PostScript::Simple
1 re 'eval'
1 SOAP::Lite; ## Required to connect external Web services (e.g. CEA)
1 SOAP::WSDL; ## Requires version 2.0 or later of SOAP::WSDL
1 Statistics::Distributions
1 Statistics::Distributions; ## Required for computing the P-value
1 strict;  ## Strict forces the programmer to write properly (without it Perl enables to hack awful things)
1 SWISS::Entry
1 user-select: none
1 user-select: none; }
2 BioMart::Initializer
2 BioMart::Query
2 BioMart::QueryRunner
2 Bio::Seq
2 Bio::SeqFeature::Generic
2 Bio::SeqIO
2 Bio::TreeIO
2 Data::Dumper; # added for debugging (print contents of hashes)
2 DB_File
2 File::Copy
2 HTTP::Tiny
2 JSON qw( decode_json );     # From CPAN
2 REST::Client
2 SOAP::Transport::HTTP
2 Storable qw(nstore)
2 Util::Properties
2 XML::LibXML
3 Bio::Das; ## Required to access UCSC Genome Browser
3 Bio::EnsEMBL::LookUp
3 CGI
3 List::Util 'shuffle'
3 MIME::Base64
3 vars qw(@ISA)
3 XML::Compile::SOAP11
3 XML::Compile::Transport::SOAPHTTP
3 XML::Compile::WSDL11
4 Bio::EnsEMBL::Registry
4 Email::Sender::Simple qw(sendmail)
4 Email::Simple
4 Email::Simple::Creator
4 File::Spec
4 Getopt::Long qw(:config bundling)
4 LWP::Simple
4 Pod::Text
4 POSIX qw(ceil floor)
4 Storable qw(nstore retrieve)
5 Bio::EnsEMBL::DBSQL::DBAdaptor
5 Bio::EnsEMBL::DBSQL::SliceAdaptor
5 Email::Sender::Transport::SMTP
5 SOAP::Lite
6 JSON
7 File::Path
7 GD
7 warnings
8 Getopt::Long
8 List::MoreUtils qw(uniq)
8 POSIX
11 DBI()
14 SOAP::WSDL
16 File::Basename
29 strict
33 Data::Dumper
