{"_id":"58cab545726a2a19002c1c77","category":{"_id":"58c11574b36d8c0f006fda47","project":"5735936aafab441700723a50","version":"58c10f5a2c3c720f00768b87","__v":0,"sync":{"url":"","isSync":false},"reference":false,"createdAt":"2017-03-09T08:42:28.884Z","from_sync":false,"order":1,"slug":"files","title":"Files"},"user":"573592b84b0ab120000b7d44","githubsync":"","__v":0,"project":"5735936aafab441700723a50","version":{"_id":"58c10f5a2c3c720f00768b87","project":"5735936aafab441700723a50","__v":4,"createdAt":"2017-03-09T08:16:26.385Z","releaseDate":"2017-03-09T08:16:26.385Z","categories":["58c10f5a2c3c720f00768b88","58c10f5a2c3c720f00768b89","58c10f5a2c3c720f00768b8a","58c10f5a2c3c720f00768b8b","58c10f5a2c3c720f00768b8c","58c10f5a2c3c720f00768b8d","58c10f5a2c3c720f00768b8e","58c10f5a2c3c720f00768b8f","58c10f5a2c3c720f00768b90","58c10f5a2c3c720f00768b91","58c10f5a2c3c720f00768b92","58c10f5a2c3c720f00768b93","58c11574b36d8c0f006fda47","58c2cdcafc6eed3900e97640","58c2ce8afc6eed3900e97663"],"is_deprecated":false,"is_hidden":false,"is_beta":false,"is_stable":true,"codename":"","version_clean":"2.0.0","version":"2.0"},"updates":[],"next":{"pages":[],"description":""},"createdAt":"2017-03-16T15:54:45.326Z","link_external":false,"link_url":"","sync_unique":"","hidden":false,"api":{"results":{"codes":[]},"settings":"","auth":"required","params":[],"url":""},"isReference":false,"order":999,"body":"Example assembl-specific configuration settings\n \n```\n[DATABASE_CORE]\n\tNAME = operophtera_brumata_v1_core_32_85_1\n[META]\n\tSPECIES.PRODUCTION_NAME = operophtera_brumata_v1\n\tSPECIES.SCIENTIFIC_NAME = Operophtera brumata\n\tSPECIES.COMMON_NAME = Winter moth\n\tSPECIES.DISPLAY_NAME = Operophtera brumata\n\tSPECIES.DIVISION = EnsemblMetazoa\n\tSPECIES.URL = Operophtera_brumata_v1\n\tSPECIES.TAXONOMY_ID = 104452\n\tSPECIES.ALIAS = [ operophtera_brumata operophtera_brumata_v1 operophtera%20brumata winter%20moth ]\n\tASSEMBLY.NAME = v1\n\tASSEMBLY.DATE = 2015-08-11\n\tASSEMBLY.ACCESSION = GCA_001266575.1\n\tASSEMBLY.DEFAULT = v1\n\tPROVIDER.NAME = Wageningen University\n\tPROVIDER.URL = http://www.bioinformatics.nl/wintermoth\n\tGENEBUILD.ID = 2\n\tGENEBUILD.START_DATE = 2016-08\n\tGENEBUILD.VERSION = 2\n\tGENEBUILD.METHOD = import\n\tSAMPLE.LOCATION_PARAM    = OBRU01_Sc00001:57580-69243\n\tSAMPLE.LOCATION_TEXT     = OBRU01_Sc00001:57580-69243\n\tSAMPLE.GENE_PARAM        = OBRU01_00004\n\tSAMPLE.GENE_TEXT         = OBRU01_00004\n\tSAMPLE.TRANSCRIPT_PARAM  = OBRU01_00004-RA\n\tSAMPLE.TRANSCRIPT_TEXT   = OBRU01_00004-RA\n\tSAMPLE.SEARCH_TEXT       = OBRU01_00015-RA\n[FILES]\n\tSCAFFOLD = [ fa http://download.lepbase.org/v4/provider/Obru1.fsa.gz ]\n\tGFF = [ gff3 http://download.lepbase.org/v4/provider/Obru_genes.gff.gz ]\n\tPROTEIN = [ fa http://download.lepbase.org/v4/provider/ObruPep.fasta.gz ]\n[GENE_STABLE_IDS]\n\tGFF = [ gene->Name /(.+)/ ]\n[TRANSCRIPT_STABLE_IDS]\n\tGFF = [ SELF->Name /(.+)/ ]\n[TRANSLATION_STABLE_IDS]\n\tGFF = [ SELF->Name /(.+)/ /-RA/-PA/ ]\n[MODIFY]\n\tOVERWRITE_DB = 1\n\tTRUNCATE_SEQUENCE_TABLES = 1\n\tTRUNCATE_GENE_TABLES = 1\n```","excerpt":"","slug":"operophtera_brumata_core_32_85_1ini","type":"basic","title":"operophtera_brumata_core_32_85_1.ini"}

operophtera_brumata_core_32_85_1.ini


Example assembl-specific configuration settings ``` [DATABASE_CORE] NAME = operophtera_brumata_v1_core_32_85_1 [META] SPECIES.PRODUCTION_NAME = operophtera_brumata_v1 SPECIES.SCIENTIFIC_NAME = Operophtera brumata SPECIES.COMMON_NAME = Winter moth SPECIES.DISPLAY_NAME = Operophtera brumata SPECIES.DIVISION = EnsemblMetazoa SPECIES.URL = Operophtera_brumata_v1 SPECIES.TAXONOMY_ID = 104452 SPECIES.ALIAS = [ operophtera_brumata operophtera_brumata_v1 operophtera%20brumata winter%20moth ] ASSEMBLY.NAME = v1 ASSEMBLY.DATE = 2015-08-11 ASSEMBLY.ACCESSION = GCA_001266575.1 ASSEMBLY.DEFAULT = v1 PROVIDER.NAME = Wageningen University PROVIDER.URL = http://www.bioinformatics.nl/wintermoth GENEBUILD.ID = 2 GENEBUILD.START_DATE = 2016-08 GENEBUILD.VERSION = 2 GENEBUILD.METHOD = import SAMPLE.LOCATION_PARAM = OBRU01_Sc00001:57580-69243 SAMPLE.LOCATION_TEXT = OBRU01_Sc00001:57580-69243 SAMPLE.GENE_PARAM = OBRU01_00004 SAMPLE.GENE_TEXT = OBRU01_00004 SAMPLE.TRANSCRIPT_PARAM = OBRU01_00004-RA SAMPLE.TRANSCRIPT_TEXT = OBRU01_00004-RA SAMPLE.SEARCH_TEXT = OBRU01_00015-RA [FILES] SCAFFOLD = [ fa http://download.lepbase.org/v4/provider/Obru1.fsa.gz ] GFF = [ gff3 http://download.lepbase.org/v4/provider/Obru_genes.gff.gz ] PROTEIN = [ fa http://download.lepbase.org/v4/provider/ObruPep.fasta.gz ] [GENE_STABLE_IDS] GFF = [ gene->Name /(.+)/ ] [TRANSCRIPT_STABLE_IDS] GFF = [ SELF->Name /(.+)/ ] [TRANSLATION_STABLE_IDS] GFF = [ SELF->Name /(.+)/ /-RA/-PA/ ] [MODIFY] OVERWRITE_DB = 1 TRUNCATE_SEQUENCE_TABLES = 1 TRUNCATE_GENE_TABLES = 1 ```