Jump to Content
easy importDiscussions
GuidesDiscussions
Discussionseasy import
GuidesDiscussions

Get Started

  • Quick start guide
  • Description

Files

  • database.ini
  • setup.ini
  • default.ini
  • operophtera_brumata_core_32_85_1.ini

Importing data

  • Requirements
  • Running the EasyImport container
  • `-s` Create database and load sequence data
  • `-p` Prepare the gff file for import
  • `-g` Import gff from prepared file
  • `-v` Verify import
  • `-b -r -c` Import additional annotations
  • `-e -j -f` Export files
  • `-i` Generate search index
  • `-u` Update meta table

Additional documentation

  • Match and replace
  • Processing exceptions
  • Referencing gff attributes
  • Repairing gff

Configuration Options (Hosting)

  • [DATABASE]
  • [ENSEMBL_USER]
  • [REPOSITORIES]
  • [WEBSITE]
  • [DATA_SOURCE]

Configuration Options (Database)

  • [DATA_SOURCE]
  • [DATABASE]
  • [WEBSITE]

Configuration Options (Core Import)

  • [DATABASE_CORE]
  • [DATABASE_SEARCH]
  • [DATABASE_TAXONOMY]
  • [DATABASE_TEMPLATE]
  • [DBXREFS]
  • [ENSEMBL]
  • [EXTERNAL_DBS]
  • [FILES]
  • [_DESCRIPTIONS]
  • [_NAMES]
  • [_STABLE_IDS]
  • [GFF]
  • [META]
  • [MODIFY]
  • [SCAFFOLD_NAMES]
  • [XREF]

Configuration Options (Compara Import)

  • [DATABASE_CORE]
  • [DATABASE_COMPARA]
  • [DATABASE_TEMPLATE]
  • [ENSEMBL]
  • [METHOD_LINK]
  • [SPECIES_SET]
  • [TAXA]
  • [ORTHOGROUP]
Powered by 

[XREF]

Suggest Edits
[XREF]
  BLASTP = [ 2000 Uniprot/swissprot/TrEMBL UniProtKB/TrEMBL ]

Set the external db id for BLASTP. The final value in the array will be used when adding links to the original data source to the description.

Updated less than a minute ago