Impl.pm.example

=head1 LICENSE

See the NOTICE file distributed with this work for additional information
regarding copyright ownership.

Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at

     http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.

=cut


=pod

=head1 NAME

PrivateConfDetails::Impl

=head1 DESCRIPTION

EG specific private configuration details implementation example.

=cut

package Bio::EnsEMBL::EGPipeline::PrivateConfDetails::Impl;

use strict;
use warnings;

our @EXPORT_OK = qw(CONFIG);
use Exporter;
our @ISA = qw(Exporter);

our $CONFIG = {
  # Bio::EnsEMBL::EGPipeline::PipeConfig::EGGeneric_conf
  ENSEMBL_QUEUE_NAME => undef,
  ENSEMBL_DATAMOVE_QUEUE_NAME => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::DNAFeatures_conf
  REDAT_REPEATMASKER_LIBRARY_PATH => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::RNAFeatures_conf
  RFAM_VERSION => undef, # Rfam DB version, i.e. '14.5' 
  RFAM_VERSIONS_DIR => undef, # part, preciding "rfam_version"  

  # Bio::EnsEMBL::EGPipeline::Common::RunnableDB::AnalysisRun
  ENSEMBL_BINDIR => undef,
  ENSEMBL_LIBDIR => undef,
  ENSEMBL_DATADIR => undef,
  ENSEMBL_WORKDIR => undef,
  ENSEMBL_TMPDIR => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::RNAGenes_conf
  ENSEMBL_ENA_IDENTIFIERS_DBNAME => undef,
  ENSEMBL_ENA_IDENTIFIERS_HOST => undef,
  ENSEMBL_ENA_IDENTIFIERS_PORT => undef,
  ENSEMBL_ENA_IDENTIFIERS_USER => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::ExonerateAlignment_conf
  ENSEMBL_EXONERATE_SERVER_DIR => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::ShortReadAlignment_conf
  ENSEMBL_STAR_DIR => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::BlastProtein_conf
  #   local copy of ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase
  ENSEMBL_UNIPROT_EBI_PATH => undef,

  # Bio::EnsEMBL::EGPipeline::BlastAlignment::FetchRefSeq
  #   local copy of ftp://ftp.ncbi.nlm.nih.gov/refseq/release
  ENSEMBL_REFSEQ_EBI_PATH => undef,

  # Bio::EnsEMBL::EGPipeline::PipeConfig::Xref_conf
  #  UniParc and Uniprot production databases are for internal use only
  #    and can not be accessed externally. Should be replaced with REST API calls.
  ENSEMBL_LOCAL_UNIPARC_DB => undef,
  ENSEMBL_REMOTE_UNIPARC_DB => undef,
  ENSEMBL_REMOTE_UNIPPROT_DB => undef,

  # Bio::EnsEMBL::EGPipeline::Xref::ImportUniParc
  #   local copy of ftp://ftp.ebi.ac.uk/pub/contrib/uniparc/upidump.lis
  ENSEMBL_UNIPARC_UPI_LIST => undef,

  # Bio::EnsEMBL::Analysis::Config::General
  ENSEMBL_EXT_BINDIR => undef,
  ENSEMBL_EXT_LIBDIR => undef,

};

1;