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Expose random seed form option for Boltz #100

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Merged
jscgh merged 1 commit into from
Jul 14, 2026
Merged

Expose random seed form option for Boltz #100

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2 changes: 1 addition & 1 deletion form.yml.erb
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Original file line number Diff line number Diff line change
Expand Up @@ -78,7 +78,7 @@ attributes:
<li><b>ESMFold</b> Medium/Low accuracy, Fastest; No evolutionary sequence calculations - <a href="https://doi.org/10.1126/science.ade2574">Paper</a></li>
</ul>
options:
- ["Boltz", "boltz", {data-hide-prot_mode: true, data-hide-full_dbs: true, data-hide-random_seed: true, data-hide-colabfold_num_recycles: true, data-hide-colabfold_advanced_options: true, data-hide-colabfold_num_seeds: true, data-hide-colabfold_use_dropout: true, data-hide-colabfold_max_msa: true, data-hide-esmfold_num_recycles: true}]
- ["Boltz", "boltz", {data-hide-prot_mode: true, data-hide-full_dbs: true, data-hide-colabfold_num_recycles: true, data-hide-colabfold_advanced_options: true, data-hide-colabfold_num_seeds: true, data-hide-colabfold_use_dropout: true, data-hide-colabfold_max_msa: true, data-hide-esmfold_num_recycles: true}]
- ["AlphaFold2", "alphafold2", {data-hide-colabfold_num_recycles: true, data-hide-colabfold_advanced_options: true, data-hide-colabfold_num_seeds: true, data-hide-colabfold_use_dropout: true, data-hide-colabfold_max_msa: true, data-hide-esmfold_num_recycles: true, data-hide-boltz_use_potentials: true}]
- ["ColabFold", "colabfold", {data-hide-full_dbs: true, data-hide-esmfold_num_recycles: true, data-hide-boltz_use_potentials: true}]
- ["ESMFold", "esmfold", {data-hide-full_dbs: true, data-hide-random_seed: true, data-hide-colabfold_num_recycles: true, data-hide-colabfold_advanced_options: true, data-hide-colabfold_num_seeds: true, data-hide-colabfold_use_dropout: true, data-hide-colabfold_max_msa: true, data-hide-boltz_use_potentials: true}]
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3 changes: 3 additions & 0 deletions template/script.sh.erb
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Expand Up @@ -304,6 +304,9 @@ fi
if [ "<%= context.af_method %>" == "boltz" ]; then
PROT_MODE="boltz"
ARGS="${ARGS} --boltz_db ${DB_PATH} --colabfold_db ${DB_PATH} --use_msa_server ${USE_MSA_SERVER}"
if [ -n "${RANDOM_SEED}" ]; then
ARGS="${ARGS} --random_seed ${RANDOM_SEED}"
fi
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if [ "${BOLTZ_USE_POTENTIALS}" == "true" ]; then
ARGS="${ARGS} --boltz_use_potentials true"
fi
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