% cacheebeyesearch -cachefile ~/.embossdata/qatests.server.ebeye -auto 

Generate server cache file for EB-eye search domains
Version: EMBOSS:6.6.0.0

   Standard (Mandatory) qualifiers:
  [-cachefile]         outfile    [server.$(servername)] Server cache output
                                  file

   Additional (Optional) qualifiers:
   -outfile            outfile    [stdout] Output file name

   Advanced (Unprompted) qualifiers: (none)
   Associated qualifiers:

   "-outfile" associated qualifiers
   -odirectory         string     Output directory

   "-cachefile" associated qualifiers
   -odirectory1        string     Output directory

   General qualifiers:
   -auto               boolean    Turn off prompts
   -stdout             boolean    Write first file to standard output
   -filter             boolean    Read first file from standard input, write
                                  first file to standard output
   -options            boolean    Prompt for standard and additional values
   -debug              boolean    Write debug output to program.dbg
   -verbose            boolean    Report some/full command line options
   -help               boolean    Report command line options and exit. More
                                  information on associated and general
                                  qualifiers can be found with -help -verbose
   -warning            boolean    Report warnings
   -error              boolean    Report errors
   -fatal              boolean    Report fatal errors
   -die                boolean    Report dying program messages
   -version            boolean    Report version number and exit

# qatests.server.ebeye 2013-07-15 12:00:00

DBNAME arrayexpress_repository [
  method: "ebeye"
  dbalias: "arrayexpress-repository"
  fields: "$facets, acc, author, biomaterial-characteristics, description, domain_source, experimentalfactors-factorvalues, id, keywords, last_update_date, name, release_date, submission_date"
  return: "acc, description, domain_source, id, name"
  format: "text"
  hasaccession: "N"
]

DBNAME atlas_experiments [
  method: "ebeye"
  dbalias: "atlas-experiments"
  fields: "$facets, creation_date, description, domain_source, id, last_modification_date, name"
  return: "description, domain_source, id, name"
  format: "text"
  hasaccession: "N"
]

DBNAME atlas_genes [
  method: "ebeye"
  dbalias: "atlas-genes"
  fields: "$facets, cell_line, cell_type, compound, creation_date, description, developmental_stage, disease, disease_state, domain_source, ensfamily_description, entrezgene, flybase_gene_id, flybase_transcript_id, flybasename_gene, flybasename_transcript, gene_biotype, goterm, hgnc_symbol, id, id_noversion, infect, interproterm, last_modification_date, mgi_description, mgi_symbol, mirbase_accession, mirbase_accession_number, mirbase_description, mirbase_gene_database, mirbase_gene_database_id, mirbase_id, mirbase_matured_mirna, mirbase_pubmedid, mirbase_sequence, name, number_of_experiments, organism_part, otherconditions, pathwayid, pathwayname, phenotype, rgd, rgd_symbol, synonym"
  return: "cell_line, cell_type, compound, description, developmental_stage, disease_state, domain_source, id, infect, name, number_of_experiments, organism_part, otherconditions, phenotype"
  format: "text"
  hasaccession: "N"
]

DBNAME biocatalogue [
  method: "ebeye"
  dbalias: "biocatalogue"
  fields: "$facets, acc, creation_date, description, domain_source, id, keywords, last_modification_date, name, provider, service_types"
  return: "description, domain_source, id, keywords, name, provider, service_types"
  format: "text"
  hasaccession: "N"
]

DBNAME biomodels [
  method: "ebeye"
  dbalias: "biomodels"
  fields: "$facets, acc, author, creation_date, curated, description, domain_source, id, keywords, last_modification_date, name, original_model"
  return: "description, domain_source, id, name"
  format: "text"
  hasaccession: "N"
]

DBNAME chebi [
  method: "ebeye"
  dbalias: "chebi"


  [Part of this file has been deleted for brevity]

  fields: "$facets, acc, creation_date, dbRefProp_EMBL_protein_sequence_ID, dbRefProp_EcoGene_gene_designation, dbRefProp_EnsemblBacteria_protein_sequence_ID, dbRefProp_EnsemblFungi_protein_sequence_ID, dbRefProp_EnsemblMetazoa_protein_sequence_ID, dbRefProp_EnsemblPlants_protein_sequence_ID, dbRefProp_EnsemblProtists_protein_sequence_ID, dbRefProp_Ensembl_protein_sequence_ID, dbRefProp_FlyBase_gene_designation, dbRefProp_GeneFarm_family_ID, dbRefProp_HGNC_gene_designation, dbRefProp_MGI_gene_designation, dbRefProp_PATRIC_gene_designation, dbRefProp_RGD_gene_designation, dbRefProp_SGD_gene_designation, dbRefProp_WormBase_gene_designation, dbRefProp_WormBase_protein_sequence_ID, dbRefProp_ZFIN_gene_designation, dbRefProp_dictyBase_gene_designation, descAltName, descRecName, descSubName, description, domain_source, gene_ORF_name, gene_ordered_locus_name, gene_primary_name, gene_synonym_name, id, keyword_id, keywords, last_modification_date, organelle, organism_host_species, organism_lineage, organism_scientific_name, organism_species, protein_existence, references, sequence_fragment, sequence_last_modif_date, sequence_length, status"
  return: "acc, descAltName, descRecName, descSubName, domain_source, gene_primary_name, id, organism_scientific_name, sequence_length, status"
  format: "text"
  hasaccession: "N"
]

DBNAME uniref100 [
  method: "ebeye"
  dbalias: "uniref100"
  fields: "$facets, dbref_protein_name, dbref_source_organism, dbref_uniprotkb_id, domain_source, entry_common_taxon, id, last_modification_date, name"
  return: "domain_source, id, name"
  format: "text"
  hasaccession: "N"
]

DBNAME uniref50 [
  method: "ebeye"
  dbalias: "uniref50"
  fields: "$facets, dbref_protein_name, dbref_source_organism, dbref_uniprotkb_id, domain_source, entry_common_taxon, id, last_modification_date, name"
  return: "domain_source, id, name"
  format: "text"
  hasaccession: "N"
]

DBNAME uniref90 [
  method: "ebeye"
  dbalias: "uniref90"
  fields: "$facets, dbref_protein_name, dbref_source_organism, dbref_uniprotkb_id, domain_source, entry_common_taxon, id, last_modification_date, name"
  return: "domain_source, id, name"
  format: "text"
  hasaccession: "N"
]

DBNAME uspto [
  method: "ebeye"
  dbalias: "uspto"
  fields: "$facets, acc, creation_date, data_class, description, doc_file, domain_source, id, length, offset_end, offset_start, organism, organism_species, references, sequence_version"
  return: "acc, description, doc_file, domain_source, id, offset_end, offset_start"
  format: "text"
  hasaccession: "N"
]

DBNAME wgs_masters [
  method: "ebeye"
  dbalias: "wgs_masters"
  fields: "$facets, description, domain_source, id, name"
  return: "description, domain_source, id, name"
  format: "text"
  hasaccession: "N"
]