<commit_before>###############################################################################
#   
#   Name:           Homo_sapiens.ini
#   
#   Description:    Configuration file for Human ensembl
#
###############################################################################

#################
# GENERAL CONFIG
#################
[general]

# Database info: only specify values if different from those in DEFAULTS

# Assembly info
UCSC_GOLDEN_PATH        = hg38
NCBI_GOLDEN_PATH        = 9606

UCSC_ASSEMBLIES         = [hg18 NCBI36 hg19 GRCh37 hg38 GRCh38]

SWITCH_ASSEMBLY         = GRCh37
SWITCH_ARCHIVE_URL      = grch37.ensembl.org
SWITCH_VERSION          = 75

LOVD_URL                = http://www.lovd.nl/search.php

SPECIES_RELEASE_VERSION = 38
ALTERNATIVE_ASSEMBLIES    = [ VEGA57 ]

REGULATORY_BUILD        = 1

DEFAULT_XREFS = [HGNC_transcript_name LRG_display_in_Ensembl CCDS UniProtKB/Swiss-Prot RefSeq_peptide GO Human_Protein_Atlas PDB]

EXPORTABLE_MISC_SETS = [ tilepath cloneset_1mb cloneset_32k cloneset_30k ]
# Search config
; list of features that are indexed ready for searching<commit_msg>Update alt assembly for human vega<commit_after>###############################################################################
#   
#   Name:           Homo_sapiens.ini
#   
#   Description:    Configuration file for Human ensembl
#
###############################################################################

#################
# GENERAL CONFIG
#################
[general]

# Database info: only specify values if different from those in DEFAULTS

# Assembly info
UCSC_GOLDEN_PATH        = hg38
NCBI_GOLDEN_PATH        = 9606

UCSC_ASSEMBLIES         = [hg18 NCBI36 hg19 GRCh37 hg38 GRCh38]

SWITCH_ASSEMBLY         = GRCh37
SWITCH_ARCHIVE_URL      = grch37.ensembl.org
SWITCH_VERSION          = 75

LOVD_URL                = http://www.lovd.nl/search.php

SPECIES_RELEASE_VERSION = 38
ALTERNATIVE_ASSEMBLIES    = [ VEGA59 ]

REGULATORY_BUILD        = 1

DEFAULT_XREFS = [HGNC_transcript_name LRG_display_in_Ensembl CCDS UniProtKB/Swiss-Prot RefSeq_peptide GO Human_Protein_Atlas PDB]

EXPORTABLE_MISC_SETS = [ tilepath cloneset_1mb cloneset_32k cloneset_30k ]
# Search config
; list of features that are indexed ready for searching
{'fraction_non_alphanumeric': 0.21482467820683532, 'fraction_numerical': 0.030181979582778518, 'mean_word_length': 4.146118721461187, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 3, 'https://': 0, 'lorem ipsum': 0, 'www.': 2, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '4214680', 'n_tokens_mistral': 787, 'n_tokens_neox': 688, 'n_words': 154}