Index

_

__init__() (fermilink.agent_runtime.AgentRuntimePolicy method) (fermilink.agents.AgentRegistry method) (fermilink.agents.registry.AgentRegistry method) (fermilink.cli.commands.gateway.GatewayLoopConfig method) (fermilink.cli.commands.gateway.QueuedRunJob method) (fermilink.cli.commands.gateway.TelegramInboundFile method) (fermilink.packages.curated_channels.ChannelPackage method) (fermilink.packages.curated_channels.ChannelPackageVersion method) (fermilink.packages.package_registry.PackageError method) (fermilink.packages.package_registry.PackageNotFoundError method) (fermilink.packages.package_registry.PackageValidationError method) (fermilink.runner.admission.QueueFullError method) (fermilink.runner.admission.RunAdmissionController method) (fermilink.runner.app.RunRequest method) (fermilink.runner.scientific_packages.PackageError method) (fermilink.runner.scientific_packages.PackageNotFoundError method) (fermilink.runner.scientific_packages.PackageValidationError method) (fermilink.services.ServiceSpec method) (fermilink.web.storage_helpers.LocalPublicStorageClient method)

__new__() (fermilink.packages.package_registry.PackageError class method) (fermilink.packages.package_registry.PackageNotFoundError class method) (fermilink.packages.package_registry.PackageValidationError class method) (fermilink.runner.admission.QueueFullError class method) (fermilink.runner.scientific_packages.PackageError class method) (fermilink.runner.scientific_packages.PackageNotFoundError class method) (fermilink.runner.scientific_packages.PackageValidationError class method)

A

acquire() (fermilink.runner.admission.RunAdmissionController method) activate_package() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) add_note() (fermilink.packages.package_registry.PackageError method) (fermilink.packages.package_registry.PackageNotFoundError method) (fermilink.packages.package_registry.PackageValidationError method) (fermilink.runner.admission.QueueFullError method) (fermilink.runner.scientific_packages.PackageError method) (fermilink.runner.scientific_packages.PackageNotFoundError method) (fermilink.runner.scientific_packages.PackageValidationError method) AgentRegistry (class in fermilink.agents) (class in fermilink.agents.registry) AgentRuntimePolicy (class in fermilink.agent_runtime)

all() (fermilink.agents.AgentRegistry method) (fermilink.agents.registry.AgentRegistry method) args (fermilink.packages.package_registry.PackageError attribute) (fermilink.packages.package_registry.PackageNotFoundError attribute) (fermilink.packages.package_registry.PackageValidationError attribute) (fermilink.runner.admission.QueueFullError attribute) (fermilink.runner.scientific_packages.PackageError attribute) (fermilink.runner.scientific_packages.PackageNotFoundError attribute) (fermilink.runner.scientific_packages.PackageValidationError attribute) as_dict() (fermilink.agent_runtime.AgentRuntimePolicy method) as_env() (fermilink.agent_runtime.AgentRuntimePolicy method) atomic_write_json() (in module fermilink.packages) (in module fermilink.packages.package_core)

B

bin_env_key (fermilink.agents.base.ProviderAgent property) (fermilink.agents.claude_agent.ClaudeAgent property) (fermilink.agents.ClaudeAgent property) (fermilink.agents.codex_agent.CodexAgent property) (fermilink.agents.CodexAgent property) (fermilink.agents.deepseek_agent.DeepseekAgent property) (fermilink.agents.DeepseekAgent property) (fermilink.agents.gemini_agent.GeminiAgent property) (fermilink.agents.GeminiAgent property) (fermilink.agents.ProviderAgent property) bootstrap_legacy_maxwelllink_package() (in module fermilink.runner.scientific_packages) build_default_registry() (in module fermilink.packages) (in module fermilink.packages.package_core)

build_exec_command() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) (in module fermilink.providers) build_synced_rules() (in module fermilink.router_rules)

C

ChannelPackage (class in fermilink.packages.curated_channels) ChannelPackageVersion (class in fermilink.packages.curated_channels) chat_id (fermilink.cli.commands.gateway.QueuedRunJob attribute) chat_key (fermilink.cli.commands.gateway.QueuedRunJob attribute) ClaudeAgent (class in fermilink.agents) (class in fermilink.agents.claude_agent) close() (fermilink.web.storage_helpers.LocalPublicStorageClient method) cmd_activate() (in module fermilink.cli.commands.packages) cmd_agent() (in module fermilink.cli.commands.agent) cmd_auto_compile() (in module fermilink.cli.commands.packages) cmd_avail() (in module fermilink.cli.commands.packages) cmd_chat() (in module fermilink.cli.commands.sessions) cmd_compile() (in module fermilink.cli.commands.packages) cmd_delete() (in module fermilink.cli.commands.packages) cmd_dependencies() (in module fermilink.cli.commands.packages) cmd_exec() (in module fermilink.cli.commands.sessions) cmd_gateway() (in module fermilink.cli.commands.gateway)

cmd_install() (in module fermilink.cli.commands.packages) cmd_list() (in module fermilink.cli.commands.packages) cmd_loop() (in module fermilink.cli.commands.sessions) cmd_overlay() (in module fermilink.cli.commands.packages) cmd_plan_workflow() (in module fermilink.cli.commands.workflows) cmd_recompile() (in module fermilink.cli.commands.packages) cmd_reproduce() (in module fermilink.cli.commands.workflows) cmd_research() (in module fermilink.cli.commands.workflows) cmd_restart() (in module fermilink.cli.commands.services) cmd_start() (in module fermilink.cli.commands.services) cmd_status() (in module fermilink.cli.commands.services) cmd_stop() (in module fermilink.cli.commands.services) CodexAgent (class in fermilink.agents) (class in fermilink.agents.codex_agent) collect_provider_service_env_overrides() (in module fermilink.providers) command (fermilink.services.ServiceSpec attribute) construct() (fermilink.runner.app.RunRequest class method) copy() (fermilink.runner.app.RunRequest method)

D

dedupe() (in module fermilink.router_rules) DeepseekAgent (class in fermilink.agents) (class in fermilink.agents.deepseek_agent) default_binary (fermilink.agents.base.ProviderAgent property) (fermilink.agents.claude_agent.ClaudeAgent property) (fermilink.agents.ClaudeAgent property) (fermilink.agents.codex_agent.CodexAgent property) (fermilink.agents.CodexAgent property) (fermilink.agents.deepseek_agent.DeepseekAgent property) (fermilink.agents.DeepseekAgent property) (fermilink.agents.gemini_agent.GeminiAgent property) (fermilink.agents.GeminiAgent property) (fermilink.agents.ProviderAgent property)

default_service_specs() (in module fermilink.services) default_version (fermilink.packages.curated_channels.ChannelPackage attribute) delete_file() (fermilink.web.storage_helpers.LocalPublicStorageClient method) delete_package() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) description (fermilink.packages.curated_channels.ChannelPackage attribute) dict() (fermilink.runner.app.RunRequest method)

E

ensure_workspace_instruction_alias() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) env (fermilink.services.ServiceSpec attribute) extract_assistant_text_chunk() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

extract_manifest_dependency_ids() (in module fermilink.packages) (in module fermilink.packages.package_core) extract_manifest_entry_names() (in module fermilink.packages) (in module fermilink.packages.package_core)

F

fermilink module fermilink.agent_runtime module fermilink.agents module fermilink.agents.base module fermilink.agents.claude_agent module fermilink.agents.codex_agent module fermilink.agents.deepseek_agent module fermilink.agents.gemini_agent module fermilink.agents.registry module fermilink.cli module fermilink.cli.commands module fermilink.cli.commands.agent module fermilink.cli.commands.gateway module fermilink.cli.commands.packages module fermilink.cli.commands.services module fermilink.cli.commands.sessions module fermilink.cli.commands.workflows module fermilink.cli.compile_helpers module fermilink.cli.compile_prompts module fermilink.cli.exec_runtime module fermilink.cli.input_repo_helpers module fermilink.cli.overlay_helpers module fermilink.cli.parser_agent module fermilink.cli.parser_builder module fermilink.cli.parser_gateway module fermilink.cli.parser_packages module fermilink.cli.parser_services module fermilink.cli.parser_sessions module fermilink.cli.parser_workflows module fermilink.cli.routing_helpers module

fermilink.cli.runtime_loaders module fermilink.cli.shared_helpers module fermilink.cli.workflow_prompts module fermilink.cli.zero_arg module fermilink.config module fermilink.packages module fermilink.packages.curated_channels module fermilink.packages.package_core module fermilink.packages.package_registry module fermilink.providers module fermilink.router_rules module fermilink.runner module fermilink.runner.admission module fermilink.runner.app module fermilink.runner.scientific_packages module fermilink.services module fermilink.web module fermilink.web.activity_helpers module fermilink.web.artifact_helpers module fermilink.web.auth_helpers module fermilink.web.chat_helpers module fermilink.web.package_router_helpers module fermilink.web.package_session_helpers module fermilink.web.runner_helpers module fermilink.web.sqlite_helpers module fermilink.web.status_helpers module fermilink.web.storage_helpers module file_id (fermilink.cli.commands.gateway.TelegramInboundFile attribute) find_project_root() (in module fermilink.runner.app) (in module fermilink.runner.scientific_packages) from_orm() (fermilink.runner.app.RunRequest class method)

G

GatewayLoopConfig (class in fermilink.cli.commands.gateway) GeminiAgent (class in fermilink.agents) (class in fermilink.agents.gemini_agent) get() (fermilink.agents.AgentRegistry method) (fermilink.agents.registry.AgentRegistry method)

get_default_agent_registry() (in module fermilink.agents) (in module fermilink.agents.registry) get_provider_agent() (in module fermilink.agents) (in module fermilink.agents.registry) get_read_url() (fermilink.web.storage_helpers.LocalPublicStorageClient method)

H

homepage_url (fermilink.packages.curated_channels.ChannelPackage attribute)

hpc_profile (fermilink.cli.commands.gateway.GatewayLoopConfig attribute)

I

infer_rule() (in module fermilink.router_rules) init_git (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) insert_option_before_prompt() (in module fermilink.agents.base) install_from_local_path() (in module fermilink.packages.package_registry)

install_from_zip() (in module fermilink.packages.package_registry) is_exportable_entry_name() (in module fermilink.packages) (in module fermilink.packages.package_core) iter_package_entries() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages)

J

job_id (fermilink.cli.commands.gateway.QueuedRunJob attribute)

json() (fermilink.runner.app.RunRequest method)

L

link_or_copy_entry() (in module fermilink.packages) (in module fermilink.packages.package_core) list_curated_packages() (in module fermilink.packages.curated_channels) list_packages() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) load_agent_runtime_policy() (in module fermilink.agent_runtime) load_family_hints() (in module fermilink.router_rules)

load_registry() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) load_registry_file() (in module fermilink.packages) (in module fermilink.packages.package_core) load_workspace_manifest() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) LocalPublicStorageClient (class in fermilink.web.storage_helpers) loop_iteration_hook (fermilink.cli.commands.gateway.GatewayLoopConfig attribute)

M

main() (in module fermilink.cli) max_iterations (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) (fermilink.cli.commands.gateway.QueuedRunJob attribute) max_wait_seconds (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) (fermilink.cli.commands.gateway.QueuedRunJob attribute) mode (fermilink.cli.commands.gateway.QueuedRunJob attribute) model (fermilink.agent_runtime.AgentRuntimePolicy attribute) model_computed_fields (fermilink.runner.app.RunRequest attribute) model_config (fermilink.runner.app.RunRequest attribute) model_construct() (fermilink.runner.app.RunRequest class method) model_copy() (fermilink.runner.app.RunRequest method) model_dump() (fermilink.runner.app.RunRequest method) model_dump_json() (fermilink.runner.app.RunRequest method) model_extra (fermilink.runner.app.RunRequest property) model_fields (fermilink.runner.app.RunRequest attribute) model_fields_set (fermilink.runner.app.RunRequest property) model_json_schema() (fermilink.runner.app.RunRequest class method) model_parametrized_name() (fermilink.runner.app.RunRequest class method) model_post_init() (fermilink.runner.app.RunRequest method) model_rebuild() (fermilink.runner.app.RunRequest class method) model_validate() (fermilink.runner.app.RunRequest class method) model_validate_json() (fermilink.runner.app.RunRequest class method) model_validate_strings() (fermilink.runner.app.RunRequest class method) module fermilink fermilink.agent_runtime fermilink.agents fermilink.agents.base fermilink.agents.claude_agent fermilink.agents.codex_agent fermilink.agents.deepseek_agent fermilink.agents.gemini_agent fermilink.agents.registry fermilink.cli fermilink.cli.commands fermilink.cli.commands.agent fermilink.cli.commands.gateway fermilink.cli.commands.packages fermilink.cli.commands.services fermilink.cli.commands.sessions fermilink.cli.commands.workflows fermilink.cli.compile_helpers fermilink.cli.compile_prompts fermilink.cli.exec_runtime fermilink.cli.input_repo_helpers fermilink.cli.overlay_helpers fermilink.cli.parser_agent fermilink.cli.parser_builder fermilink.cli.parser_gateway fermilink.cli.parser_packages fermilink.cli.parser_services fermilink.cli.parser_sessions fermilink.cli.parser_workflows fermilink.cli.routing_helpers fermilink.cli.runtime_loaders fermilink.cli.shared_helpers fermilink.cli.workflow_prompts fermilink.cli.zero_arg fermilink.config fermilink.packages fermilink.packages.curated_channels fermilink.packages.package_core fermilink.packages.package_registry fermilink.providers fermilink.router_rules fermilink.runner fermilink.runner.admission fermilink.runner.app fermilink.runner.scientific_packages fermilink.services fermilink.web fermilink.web.activity_helpers fermilink.web.artifact_helpers fermilink.web.auth_helpers fermilink.web.chat_helpers fermilink.web.package_router_helpers fermilink.web.package_session_helpers fermilink.web.runner_helpers fermilink.web.sqlite_helpers fermilink.web.status_helpers fermilink.web.storage_helpers

N

name (fermilink.services.ServiceSpec attribute) normalize_channel_id() (in module fermilink.packages.curated_channels) normalize_components() (in module fermilink.services) normalize_model() (in module fermilink.agent_runtime) normalize_package_id() (in module fermilink.packages) (in module fermilink.packages.package_core) (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) normalize_process_home() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

normalize_provider() (in module fermilink.agent_runtime) normalize_reasoning_effort() (in module fermilink.agent_runtime) normalize_registry_payload() (in module fermilink.packages) (in module fermilink.packages.package_core) normalize_sandbox_mode() (in module fermilink.agent_runtime) normalize_sandbox_policy() (in module fermilink.agent_runtime) normalize_terms() (in module fermilink.router_rules) notes (fermilink.packages.curated_channels.ChannelPackageVersion attribute)

O

ops_admission() (in module fermilink.runner.app) ops_concurrency() (in module fermilink.runner.app) ops_concurrency_prometheus() (in module fermilink.runner.app)

overlay_package_into_repo() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) overlay_package_into_repo_core() (in module fermilink.packages) (in module fermilink.packages.package_core)

P

package_id (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) (fermilink.packages.curated_channels.ChannelPackage attribute) (fermilink.runner.app.RunRequest attribute) package_id_terms() (in module fermilink.router_rules) PackageError, [1] PackageNotFoundError, [1] packages_root() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) PackageValidationError, [1] parse_file() (fermilink.runner.app.RunRequest class method) parse_obj() (fermilink.runner.app.RunRequest class method) parse_raw() (fermilink.runner.app.RunRequest class method) pid_stall_seconds (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) prepare_final_reply_capture_command() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) prepare_one_shot_exec_command() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) prepare_runtime_env() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

prepare_shared_turn_command() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) prompt (fermilink.cli.commands.gateway.QueuedRunJob attribute) provider (fermilink.agent_runtime.AgentRuntimePolicy attribute) (fermilink.agents.base.ProviderAgent property) (fermilink.agents.claude_agent.ClaudeAgent property) (fermilink.agents.ClaudeAgent property) (fermilink.agents.codex_agent.CodexAgent property) (fermilink.agents.CodexAgent property) (fermilink.agents.deepseek_agent.DeepseekAgent property) (fermilink.agents.DeepseekAgent property) (fermilink.agents.gemini_agent.GeminiAgent property) (fermilink.agents.GeminiAgent property) (fermilink.agents.ProviderAgent property) (fermilink.runner.app.RunRequest attribute) provider_bin_default_map() (fermilink.agents.AgentRegistry method) (fermilink.agents.registry.AgentRegistry method) provider_bin_env_key() (in module fermilink.providers) provider_bin_env_map() (fermilink.agents.AgentRegistry method) (fermilink.agents.registry.AgentRegistry method) provider_id() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) provider_supports_auto_compile_metadata_generation() (in module fermilink.providers) ProviderAgent (class in fermilink.agents) (class in fermilink.agents.base)

Q

queued_at_utc (fermilink.cli.commands.gateway.QueuedRunJob attribute)

QueuedRunJob (class in fermilink.cli.commands.gateway) QueueFullError

R

reasoning_effort (fermilink.agent_runtime.AgentRuntimePolicy attribute) REASONING_MAP (fermilink.agents.claude_agent.ClaudeAgent attribute) (fermilink.agents.ClaudeAgent attribute) register_agent_parser() (in module fermilink.cli.parser_agent) register_chat_parser() (in module fermilink.cli.parser_sessions) register_exec_loop_parsers() (in module fermilink.cli.parser_sessions) register_gateway_parser() (in module fermilink.cli.parser_gateway) register_package() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) register_package_install_compile_parsers() (in module fermilink.cli.parser_packages) register_package_management_parsers() (in module fermilink.cli.parser_packages) register_service_parsers() (in module fermilink.cli.parser_services) register_workflow_parsers() (in module fermilink.cli.parser_workflows) registry_path() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) release() (fermilink.runner.admission.RunAdmissionController method) remove_existing_entry() (in module fermilink.packages) (in module fermilink.packages.package_core) remove_managed_dependency_links() (in module fermilink.packages) (in module fermilink.packages.package_core) remove_managed_entries() (in module fermilink.packages) (in module fermilink.packages.package_core) remove_workspace_instruction_alias_symlink() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) render_stream_event() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

resolve_agent_runtime_path() (in module fermilink.agent_runtime) resolve_agent_runtime_policy() (in module fermilink.agent_runtime) resolve_binary() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) resolve_binary_override() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) resolve_curated_package() (in module fermilink.packages.curated_channels) resolve_fermilink_home() (in module fermilink.config) resolve_provider_binary() (in module fermilink.providers) resolve_provider_binary_override() (in module fermilink.providers) resolve_runtime_root() (in module fermilink.config) resolve_scipkg_root() (in module fermilink.config) (in module fermilink.runner.scientific_packages) resolve_session_package() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) resolve_workspaces_root() (in module fermilink.config) run() (in module fermilink.runner.app) run_generation (fermilink.cli.commands.gateway.QueuedRunJob attribute) RunAdmissionController (class in fermilink.runner.admission) RunRequest (class in fermilink.runner.app)

S

sandbox (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) (fermilink.runner.app.RunRequest attribute) sandbox_mode (fermilink.agent_runtime.AgentRuntimePolicy attribute) SANDBOX_PERMISSION_MODE (fermilink.agents.claude_agent.ClaudeAgent attribute) (fermilink.agents.ClaudeAgent attribute) sandbox_policy (fermilink.agent_runtime.AgentRuntimePolicy attribute) sanitize_process_env() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) save_agent_runtime_policy() (in module fermilink.agent_runtime) save_registry() (in module fermilink.packages.package_registry) save_registry_file() (in module fermilink.packages) (in module fermilink.packages.package_core) save_workspace_manifest() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) schema() (fermilink.runner.app.RunRequest class method) schema_json() (fermilink.runner.app.RunRequest class method) select_package_version() (in module fermilink.packages.curated_channels) service_env_overrides() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) service_status() (in module fermilink.services)

ServiceSpec (class in fermilink.services) session_id (fermilink.runner.app.RunRequest attribute) set_package_dependency_ids() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) set_package_overlay_entries() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages) snapshot() (fermilink.runner.admission.RunAdmissionController method) snapshot_for_user() (fermilink.runner.admission.RunAdmissionController method) source_archive_url (fermilink.packages.curated_channels.ChannelPackageVersion attribute) source_ref_type (fermilink.packages.curated_channels.ChannelPackageVersion attribute) source_ref_value (fermilink.packages.curated_channels.ChannelPackageVersion attribute) sse() (in module fermilink.runner.app) start_service() (in module fermilink.services) stop_service() (in module fermilink.services) suggested_name (fermilink.cli.commands.gateway.TelegramInboundFile attribute) supports_auto_compile_metadata_generation() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) supports_direct_terminal_stream() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method) sync_router_rules() (in module fermilink.router_rules)

T

tags (fermilink.packages.curated_channels.ChannelPackage attribute)

TelegramInboundFile (class in fermilink.cli.commands.gateway) title (fermilink.packages.curated_channels.ChannelPackage attribute)

U

update_forward_refs() (fermilink.runner.app.RunRequest class method) upload_file() (fermilink.web.storage_helpers.LocalPublicStorageClient method) upstream_repo_url (fermilink.packages.curated_channels.ChannelPackage attribute) user_id (fermilink.runner.app.RunRequest attribute) user_prompt (fermilink.runner.app.RunRequest attribute) uses_json_output_for_second_guess() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

uses_json_stream() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

V

validate() (fermilink.runner.app.RunRequest class method) verified (fermilink.packages.curated_channels.ChannelPackageVersion attribute)

verify_provider_bin() (in module fermilink.runner.app) version_id (fermilink.packages.curated_channels.ChannelPackageVersion attribute) versions (fermilink.packages.curated_channels.ChannelPackage attribute)

W

wait_seconds (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) with_traceback() (fermilink.packages.package_registry.PackageError method) (fermilink.packages.package_registry.PackageNotFoundError method) (fermilink.packages.package_registry.PackageValidationError method) (fermilink.runner.admission.QueueFullError method) (fermilink.runner.scientific_packages.PackageError method) (fermilink.runner.scientific_packages.PackageNotFoundError method) (fermilink.runner.scientific_packages.PackageValidationError method) workflow_status_hook (fermilink.cli.commands.gateway.GatewayLoopConfig attribute) workspace_id (fermilink.cli.commands.gateway.QueuedRunJob attribute) workspace_instruction_alias_name() (fermilink.agents.base.ProviderAgent method) (fermilink.agents.claude_agent.ClaudeAgent method) (fermilink.agents.ClaudeAgent method) (fermilink.agents.codex_agent.CodexAgent method) (fermilink.agents.CodexAgent method) (fermilink.agents.deepseek_agent.DeepseekAgent method) (fermilink.agents.DeepseekAgent method) (fermilink.agents.gemini_agent.GeminiAgent method) (fermilink.agents.GeminiAgent method) (fermilink.agents.ProviderAgent method)

workspace_label (fermilink.cli.commands.gateway.QueuedRunJob attribute) workspace_manifest_path() (in module fermilink.packages.package_registry) (in module fermilink.runner.scientific_packages)

Z

zip_url (fermilink.packages.curated_channels.ChannelPackage attribute)