Indexing of Solr Cores

Solr cores in QTM

There are a total of 9 solr cores in QTM. Data used to make these cores is provided in csv files here: QTM/solr/core_data. The script Import_csv.java is used to import this data into a solr core.

1. Trait Descriptors: Created Using the following ontologies

• Trait Ontology http://purl.obolibrary.org/obo/to.owl
• Crop Ontology
  • • Solanacae Phenotypic Ontology http://www.cropontology.org/get-ontology/SP
  • • Potato Ontology http://www.cropontology.org/get-ontology/CO_330
• Chebi ftp://ftp.ebi.ac.uk/pub/databases/chebi/ontology/chebi.obo

2. Trait Vales:

• Created using Stato Ontology http://bioportal.bioontology.org/ontologies/STATO

3. Trait Properties: Created manually: 30 terms

4. Tomato_markers: Created using SGN annoation files ftp://ftp.solgenomics.net/genomes/Solanum_lycopersicum/annotation/ITAG2.3_release/ITAG2.3_sgn_data.gff3

5. Tomato_genes: Created using SGN annoation files ftp://ftp.solgenomics.net/genomes/Solanum_lycopersicum/annotation/ITAG2.3_release/ITAG2.3_sgn_data.gff3

6. Potato_ITAG_SNP: Created using annoation files ftp://ftp.solgenomics.net/genomes/Solanum_tuberosum/annotation/PGSC_4.03/potato_69011SNPs_potato_dm_v4.03.gff3.zip

7. Potato_ITAG_Genes: Created using annoation files ftp://ftp.solgenomics.net/genomes/Solanum_tuberosum/annotation/ITAG1.0/Stuberosum_gene_models_ITAG1.gff3

8. Potato_PGCS_markers: Created using PGSC annoation files of DART markers ftp://ftp.solgenomics.net/genomes/Solanum_tuberosum/annotation/PGSC_4.03/PGSC_DM_V403_DArT.gff.zip

9. Potato_PGSC_genes: Created using PGSC annoation files ftp://ftp.solgenomics.net/genomes/Solanum_tuberosum/annotation/PGSC_4.03/PGSC_DM_V403_genes.gff.zip