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all_presets_with_paths = {
# ESM2 models (from esm2.py)
'ESM2-8': 'Synthyra/ESM2-8M',
'ESM2-35': 'Synthyra/ESM2-35M',
'ESM2-150': 'Synthyra/ESM2-150M',
'ESM2-650': 'Synthyra/ESM2-650M',
'ESM2-3B': 'Synthyra/ESM2-3B',
# DSM models (from esm2.py)
'DSM-150': 'GleghornLab/ESM_diff_150',
'DSM-650': 'GleghornLab/ESM_diff_650',
'DSM-PPI': 'Synthyra/DSM_ppi_full',
# ESMC models (from esmc.py)
'ESMC-300': 'Synthyra/ESMplusplus_small',
'ESMC-600': 'Synthyra/ESMplusplus_large',
# E1 models (from e1.py)
'E1-150': 'Synthyra/Profluent-E1-150M',
'E1-300': 'Synthyra/Profluent-E1-300M',
'E1-600': 'Synthyra/Profluent-E1-600M',
# ProtBert models (from protbert.py)
'ProtBert': 'Rostlab/prot_bert',
'ProtBert-BFD': 'Rostlab/prot_bert_bfd',
# ProtT5 models (from prott5.py)
'ProtT5': 'Rostlab/prot_t5_xl_half_uniref50-enc',
'ProtT5-XL-UniRef50-full-prec': 'Rostlab/prot_t5_xl_uniref50',
'ProtT5-XXL-UniRef50': 'Rostlab/prot_t5_xxl_uniref50',
'ProtT5-XL-BFD': 'Rostlab/prot_t5_xl_bfd',
'ProtT5-XXL-BFD': 'Rostlab/prot_t5_xxl_bfd',
# ANKH models (from ankh.py)
'ANKH-Base': 'Synthyra/ANKH_base',
'ANKH-Large': 'Synthyra/ANKH_large',
'ANKH2-Large': 'Synthyra/ANKH2_large',
# GLM2 models (from glm.py)
'GLM2-150': 'tattabio/gLM2_150M',
'GLM2-650': 'tattabio/gLM2_650M',
'GLM2-GAIA': 'tattabio/gLM2_650M_embed',
# DPLM models (from dplm.py)
'DPLM-150': 'airkingbd/dplm_150m',
'DPLM-650': 'airkingbd/dplm_650m',
'DPLM-3B': 'airkingbd/dplm_3b',
# DPLM2 models (from dplm2.py)
'DPLM2-150': 'airkingbd/dplm2_150m',
'DPLM2-650': 'airkingbd/dplm2_650m',
'DPLM2-3B': 'airkingbd/dplm2_3b',
# AMPLIFY models (from amplify.py)
'AMPLIFY-120': 'GleghornLab/AMPLIFY_120M',
'AMPLIFY-350': 'GleghornLab/AMPLIFY_350M',
# Random models (from random.py)
'Random': 'random',
'Random-Transformer': 'facebook/esm2_t12_35M_UR50D',
'Random-ESM2-8': 'facebook/esm2_t6_8M_UR50D',
'Random-ESM2-35': 'facebook/esm2_t12_35M_UR50D',
'Random-ESM2-150': 'facebook/esm2_t30_150M_UR50D',
'Random-ESM2-650': 'facebook/esm2_t36_650M_UR50D',
# OneHot models (from one_hot.py) - internal implementations
'OneHot-Protein': 'OneHot-Protein',
'OneHot-DNA': 'OneHot-DNA',
'OneHot-RNA': 'OneHot-RNA',
'OneHot-Codon': 'OneHot-Codon',
# Vec2Vec models (from vec2vec.py)
'vec2vec-ESM2-8-ESM2-35': 'Synthyra/ESM2-8-ESM2-35-sequence-sequence',
'vec2vec-ESM2-8-ESM2-150': 'Synthyra/ESM2-8-ESM2-150-sequence-sequence',
'vec2vec-ESM2-8-ESM2-650': 'Synthyra/ESM2-8-ESM2-650-sequence-sequence',
'vec2vec-ESM2-8-ESM2-3B': 'Synthyra/ESM2-8-ESM2-3B-sequence-sequence',
'vec2vec-ESM2-35-ESM2-150': 'Synthyra/ESM2-35-ESM2-150-sequence-sequence',
'vec2vec-ESM2-35-ESM2-650': 'Synthyra/ESM2-35-ESM2-650-sequence-sequence',
'vec2vec-ESM2-35-ESM2-3B': 'Synthyra/ESM2-35-ESM2-3B-sequence-sequence',
'vec2vec-ESM2-150-ESM2-650': 'Synthyra/ESM2-150-ESM2-650-sequence-sequence',
'vec2vec-ESM2-150-ESM2-3B': 'Synthyra/ESM2-150-ESM2-3B-sequence-sequence',
'vec2vec-ESM2-650-ESM2-3B': 'Synthyra/ESM2-650-ESM2-3B-sequence-sequence',
# CaLM models (from calm.py)
'CaLM': 'multimolecule/calm',
}
currently_supported_models = [
'ESM2-8',
'ESM2-35',
'ESM2-150',
'ESM2-650',
'ESM2-3B',
'Random',
'Random-Transformer',
'Random-ESM2-8',
'Random-ESM2-35', # same as Random-Transformer
'Random-ESM2-150',
'Random-ESM2-650',
'ESMC-300',
'ESMC-600',
'E1-150',
'E1-300',
'E1-600',
'ProtBert',
'ProtBert-BFD',
'ProtT5',
'ProtT5-XL-UniRef50-full-prec',
'ProtT5-XXL-UniRef50',
'ProtT5-XL-BFD',
'ProtT5-XXL-BFD',
'ANKH-Base',
'ANKH-Large',
'ANKH2-Large',
'GLM2-150',
'GLM2-650',
'GLM2-GAIA',
'DPLM-150',
'DPLM-650',
'DPLM-3B',
'DPLM2-150',
'DPLM2-650',
'DPLM2-3B',
'DSM-150',
'DSM-650',
'DSM-PPI',
'OneHot-Protein',
'OneHot-DNA',
'OneHot-RNA',
'OneHot-Codon',
'AMPLIFY-120',
'AMPLIFY-350',
'CaLM',
]
standard_models = [
'AMPLIFY-120',
'AMPLIFY-350',
'GLM2-150',
'GLM2-650',
'GLM2-GAIA',
'DSM-150',
'DSM-650',
'DSM-PPI',
'E1-150',
'E1-300',
'E1-600',
'DSM-150',
'DSM-650',
'DSM-PPI',
'ESM2-8',
'ESM2-35',
'ESM2-150',
'ESM2-650',
'ESM2-3B',
'ESMC-300',
'ESMC-600',
'ProtBert-BFD',
'ProtT5',
'ANKH-Base',
'ANKH-Large',
'ANKH2-Large',
'DPLM-150',
'DPLM-650',
'DPLM-3B',
'DPLM2-150',
'DPLM2-650',
'DPLM2-3B',
'Random',
'Random-Transformer',
'OneHot-Protein',
]
experimental_models = []
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