Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
I
|
L
|
M
|
N
|
O
|
P
|
Q
|
R
|
S
|
T
|
U
|
W
|
X
|
Y
A
action (s4.clarity.permission.Permission attribute)
(s4.clarity.step.ArtifactAction attribute)
actions (s4.clarity.step.Step attribute)
ACTIVE_STATUS (s4.clarity.configuration.Workflow attribute)
add() (s4.clarity.ElementFactory method)
add_arguments() (s4.clarity.scripts.DerivedSampleAutomation class method)
(s4.clarity.scripts.GenericScript class method)
(s4.clarity.scripts.ShellScript class method)
(s4.clarity.scripts.StepEPP class method)
(s4.clarity.scripts.TriggeredStepEPP class method)
(s4.clarity.scripts.WorkflowTest class method)
add_default_reagents() (s4.clarity.steputils.step_runner.StepRunner method)
add_preset() (s4.clarity.configuration.Udf method)
add_reagent_lots() (s4.clarity.step.StepReagentLots method)
add_reagents_step() (s4.clarity.steputils.step_runner.StepRunner method)
add_role() (s4.clarity.researcher.Researcher method)
add_selected_container() (s4.clarity.step.StepPlacements method)
add_triggered_step_actions() (s4.clarity.scripts.TriggeredStepEPP class method)
advance() (s4.clarity.step.Step method)
all() (s4.clarity.ElementFactory method)
all_next_step() (s4.clarity.step.StepActions method)
allow_non_preset_values (s4.clarity.configuration.Udf attribute)
archived (s4.clarity.control_type.ControlType attribute)
(s4.clarity.instrument.Instrument attribute)
(s4.clarity.reagent_kit.ReagentKit attribute)
ARCHIVED_STATUS (s4.clarity.configuration.Workflow attribute)
arranging() (s4.clarity.steputils.step_runner.StepRunner method)
Artifact (class in s4.clarity.artifact)
artifact (s4.clarity.artifact.ArtifactDemux attribute)
(s4.clarity.artifact.DemuxArtifact attribute)
(s4.clarity.sample.Sample attribute)
(s4.clarity.step.Placement attribute)
artifact() (s4.clarity.LIMS method)
artifact_actions (s4.clarity.step.StepActions attribute)
artifact_at() (s4.clarity.container.Container method)
artifact_from_uri() (s4.clarity.LIMS method)
artifact_uri (s4.clarity.step.ArtifactAction attribute)
ArtifactAction (class in s4.clarity.step)
ArtifactDemux (class in s4.clarity.artifact)
as_index() (s4.clarity.container.ContainerDimension method)
as_label() (s4.clarity.container.ContainerDimension method)
assign() (s4.clarity.routing.Router method)
attach_to (s4.clarity.configuration.ProtocolStepField attribute)
attach_to_category (s4.clarity.configuration.Udf attribute)
attach_to_name (s4.clarity.configuration.Udf attribute)
attached_to (s4.clarity.file.File attribute)
attributes (s4.clarity.reagent_type.ReagentType attribute)
auto_place_artifacts() (in module s4.clarity.steputils.placement_utils)
automatic_next_step (s4.clarity.step.Step attribute)
Automation (class in s4.clarity.configuration)
available_inputs (s4.clarity.step.StepPools attribute)
available_programs (s4.clarity.step.Step attribute)
AvailableInput (class in s4.clarity.step)
B
batch_create() (s4.clarity.ElementFactory method)
batch_fetch() (s4.clarity.ElementFactory method)
batch_get() (s4.clarity.ElementFactory method)
batch_get_from_limsids() (s4.clarity.ElementFactory method)
batch_invalidate() (s4.clarity.ElementFactory method)
batch_refresh() (s4.clarity.ElementFactory method)
batch_tag (s4.clarity.ElementFactory attribute)
batch_update() (s4.clarity.ElementFactory method)
C
calculatecv() (in module s4.clarity.steputils.step_average_utils)
can_batch_create() (s4.clarity.ElementFactory method)
can_batch_get() (s4.clarity.ElementFactory method)
can_batch_update() (s4.clarity.ElementFactory method)
can_query() (s4.clarity.ElementFactory method)
catalogue_number (s4.clarity.control_type.ControlType attribute)
(s4.clarity.reagent_kit.ReagentKit attribute)
channel (s4.clarity.configuration.Automation attribute)
ClarityElement (class in s4.clarity)
ClarityException (class in s4.clarity)
clear() (s4.clarity.routing.Router method)
clear_placements() (s4.clarity.step.StepPlacements method)
clear_selected_containers() (s4.clarity.step.StepPlacements method)
close() (s4.clarity.file.File method)
close_date (s4.clarity.project.Project attribute)
column_major_order_wells() (s4.clarity.container.ContainerType method)
column_order_sort_keys() (in module s4.clarity.steputils.placement_utils)
column_order_wells() (s4.clarity.container.ContainerType method)
command_string (s4.clarity.configuration.Automation attribute)
commit() (s4.clarity.ClarityElement method)
(s4.clarity.file.File method)
(s4.clarity.process.Process method)
(s4.clarity.routing.Router method)
(s4.clarity.step.StepDetails method)
(s4.clarity.step.StepPlacements method)
complete_and_repeat() (s4.clarity.step.ArtifactAction method)
compute_average() (in module s4.clarity.steputils.step_average_utils)
concentration (s4.clarity.control_type.ControlType attribute)
configuration (s4.clarity.step.Step attribute)
Container (class in s4.clarity.container)
container (s4.clarity.artifact.Artifact attribute)
(s4.clarity.step.Placement attribute)
container_type (s4.clarity.container.Container attribute)
ContainerDimension (class in s4.clarity.container)
ContainerType (class in s4.clarity.container)
content_location (s4.clarity.file.File attribute)
context (s4.clarity.configuration.Automation attribute)
control_type (s4.clarity.artifact.Artifact attribute)
ControlType (class in s4.clarity.control_type)
copy_from_input_to_output() (in module s4.clarity.steputils.copyudfs)
copy_from_input_to_sample() (in module s4.clarity.steputils.copyudfs)
copy_from_output_to_input() (in module s4.clarity.steputils.copyudfs)
copy_from_output_to_sample() (in module s4.clarity.steputils.copyudfs)
copy_from_sample_to_input() (in module s4.clarity.steputils.copyudfs)
copy_from_sample_to_output() (in module s4.clarity.steputils.copyudfs)
create_placement() (s4.clarity.step.StepPlacements method)
create_placement_with_no_location() (s4.clarity.step.StepPlacements method)
create_pool() (s4.clarity.step.StepPools method)
created_date (s4.clarity.reagent_lot.ReagentLot attribute)
current_state (s4.clarity.step.Step attribute)
D
data (s4.clarity.file.File attribute)
date_completed (s4.clarity.sample.Sample attribute)
(s4.clarity.step.Step attribute)
date_received (s4.clarity.sample.Sample attribute)
date_started (s4.clarity.step.Step attribute)
date_to_str() (in module s4.clarity.utils)
datetime_to_str() (in module s4.clarity.utils)
DEFAULT_TIMEOUT (s4.clarity.LIMS attribute)
delete() (s4.clarity.ElementFactory method)
demux (s4.clarity.artifact.Artifact attribute)
(s4.clarity.artifact.ArtifactDemux attribute)
(s4.clarity.artifact.DemuxArtifact attribute)
demux_artifacts (s4.clarity.artifact.DemuxDetails attribute)
DemuxArtifact (class in s4.clarity.artifact)
DemuxDetails (class in s4.clarity.artifact)
DerivedSampleAutomation (class in s4.clarity.scripts)
description (s4.clarity.permission.Permission attribute)
details (s4.clarity.step.Step attribute)
dimension_range (s4.clarity.container.ContainerDimension attribute)
discard_outliers() (in module s4.clarity.steputils.step_average_utils)
display() (s4.clarity.scripts.StepEPP static method)
E
ElementFactory (class in s4.clarity)
email (s4.clarity.researcher.Researcher attribute)
enqueue() (s4.clarity.configuration.Stage method)
(s4.clarity.configuration.Workflow method)
escalated_artifacts (s4.clarity.step.StepActions attribute)
escalation_author (s4.clarity.step.StepActions attribute)
escalation_date (s4.clarity.step.StepActions attribute)
escalation_reviewer (s4.clarity.step.StepActions attribute)
expiry_date (s4.clarity.instrument.Instrument attribute)
(s4.clarity.reagent_lot.ReagentLot attribute)
F
factory_for() (s4.clarity.LIMS method)
field_type (s4.clarity.configuration.Udf attribute)
fields (s4.clarity._internal.FieldsMixin attribute)
(s4.clarity.process.Process attribute)
(s4.clarity.step.Step attribute)
(s4.clarity.step.StepDetails attribute)
FieldsMixin (class in s4.clarity._internal)
File (class in s4.clarity.file)
file (s4.clarity.artifact.Artifact attribute)
files (s4.clarity.project.Project attribute)
final_summary (s4.clarity.scripts.GenericScript attribute)
find_dilution_factor() (in module s4.clarity.steputils.step_average_utils)
fire() (s4.clarity.step.StepTrigger method)
fire_script() (s4.clarity.steputils.step_runner.StepRunner method)
first_name (s4.clarity.researcher.Researcher attribute)
first_preset_is_default_value (s4.clarity.configuration.Udf attribute)
flush() (s4.clarity.file.File method)
from_limsid() (s4.clarity.ElementFactory method)
from_link_node() (s4.clarity.ElementFactory method)
(s4.clarity.StepFactory method)
from_link_nodes() (s4.clarity.ElementFactory method)
G
GenericScript (class in s4.clarity.scripts)
get() (s4.clarity._internal.FieldsMixin method)
(s4.clarity.ElementFactory method)
(s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
get_artifact_workflow_stages_for_current_step() (in module s4.clarity.steputils.actions)
get_by_name() (s4.clarity.ElementFactory method)
(s4.clarity.StepFactory method)
(s4.clarity.UdfFactory method)
get_controls_from_control_names() (s4.clarity.steputils.step_runner.StepRunner method)
get_current_workflow_stages() (in module s4.clarity.steputils.actions)
get_formatted_number_string() (s4.clarity._internal.FieldsMixin method)
(s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
get_parameter() (s4.clarity.configuration.ProcessType method)
get_parent_artifacts() (in module s4.clarity.utils.artifact_ancestry)
get_previous_steps_outputs() (s4.clarity.steputils.step_runner.StepRunner method)
get_raw() (s4.clarity._internal.FieldsMixin method)
(s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
get_started_step() (s4.clarity.steputils.step_runner.StepRunner method)
get_udf_config() (s4.clarity._internal.FieldsMixin method)
(s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
get_udfs_from_artifacts_or_ancestors() (in module s4.clarity.utils.artifact_ancestry)
getvalue() (s4.clarity.file.File method)
I
index (s4.clarity.configuration.Protocol attribute)
(s4.clarity.configuration.Stage attribute)
initials (s4.clarity.researcher.Researcher attribute)
input (s4.clarity.iomaps.IOMap attribute)
(s4.clarity.step.AvailableInput attribute)
inputs (s4.clarity.configuration.ProcessType attribute)
(s4.clarity.scripts.StepEPP attribute)
(s4.clarity.step.Pool attribute)
Instrument (class in s4.clarity.instrument)
instrument_type (s4.clarity.instrument.Instrument attribute)
instrument_used (s4.clarity.step.StepDetails attribute)
invalidate() (s4.clarity.ClarityElement method)
(s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
invoice_date (s4.clarity.project.Project attribute)
IOMap (class in s4.clarity.iomaps)
iomaps (s4.clarity.scripts.StepEPP attribute)
iomaps_input_keyed() (s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
iomaps_output_keyed() (s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
is_active (s4.clarity.configuration.Workflow attribute)
is_alpha (s4.clarity.container.ContainerDimension attribute)
is_archived (s4.clarity.configuration.Workflow attribute)
is_authentication_error() (s4.clarity.ClarityException static method)
is_binary_mode (s4.clarity.file.File attribute)
is_control (s4.clarity.artifact.Artifact attribute)
(s4.clarity.sample.Sample attribute)
is_controlled_vocabulary (s4.clarity.configuration.Udf attribute)
is_default (s4.clarity.configuration.ProcessTemplate attribute)
is_deviation (s4.clarity.configuration.Udf attribute)
is_editable (s4.clarity.configuration.Udf attribute)
is_fully_retrieved() (s4.clarity.ClarityElement method)
is_pending (s4.clarity.configuration.Workflow attribute)
is_published (s4.clarity.file.File attribute)
is_redirect() (s4.clarity.ClarityException static method)
is_required (s4.clarity.configuration.Udf attribute)
is_response_exception() (s4.clarity.ClarityException static method)
is_tube (s4.clarity.container.ContainerType attribute)
isatty() (s4.clarity.file.File method)
L
Lab (class in s4.clarity.lab)
lab (s4.clarity.researcher.Researcher attribute)
last_modified_date (s4.clarity.reagent_lot.ReagentLot attribute)
last_name (s4.clarity.researcher.Researcher attribute)
LIMS (class in s4.clarity)
limsid (s4.clarity.ClarityElement attribute)
(s4.clarity.process.Process attribute)
(s4.clarity.step.StepDetails attribute)
load_existing_step() (s4.clarity.steputils.step_runner.StepRunner method)
load_new_step() (s4.clarity.steputils.step_runner.StepRunner method)
location_value (s4.clarity.artifact.Artifact attribute)
(s4.clarity.step.Placement attribute)
loggingpreamble() (s4.clarity.scripts.GenericScript static method)
lot_number (s4.clarity.reagent_lot.ReagentLot attribute)
M
main() (s4.clarity.scripts.GenericScript class method)
mark_protocol_complete() (s4.clarity.step.ArtifactAction method)
max_value (s4.clarity.configuration.Udf attribute)
median() (in module s4.clarity.steputils.step_average_utils)
message (s4.clarity.step.StepProgramStatus attribute)
min_value (s4.clarity.configuration.Udf attribute)
N
name (s4.clarity.artifact.WorkflowStageHistory attribute)
(s4.clarity.ClarityElement attribute)
(s4.clarity.configuration.Automation attribute)
(s4.clarity.configuration.ProtocolStepField attribute)
(s4.clarity.file.File attribute)
(s4.clarity.instrument.Instrument attribute)
(s4.clarity.reagent_kit.ReagentKit attribute)
(s4.clarity.reagent_lot.ReagentLot attribute)
(s4.clarity.reagent_type.ReagentType attribute)
(s4.clarity.step.Pool attribute)
(s4.clarity.step.Step attribute)
(s4.clarity.step.StepDetails attribute)
(s4.clarity.step.StepTrigger attribute)
new() (s4.clarity.ElementFactory method)
new_empty() (s4.clarity.file.File class method)
new_from_local() (s4.clarity.file.File class method)
next_actions (s4.clarity.step.StepActions attribute)
next_step() (s4.clarity.step.ArtifactAction method)
next_steps() (s4.clarity.steputils.step_runner.StepRunner method)
notes (s4.clarity.reagent_lot.ReagentLot attribute)
number_of_steps (s4.clarity.configuration.Protocol attribute)
O
occupied_wells (s4.clarity.container.Container attribute)
offset (s4.clarity.container.ContainerDimension attribute)
open_date (s4.clarity.project.Project attribute)
open_file() (s4.clarity.artifact.Artifact method)
open_log_output_stream() (s4.clarity.scripts.GenericScript method)
(s4.clarity.scripts.StepEPP method)
open_resultfile() (s4.clarity.step.Step method)
output (s4.clarity.iomaps.IOMap attribute)
(s4.clarity.step.Pool attribute)
output_reagents (s4.clarity.step.StepReagents attribute)
output_type (s4.clarity.artifact.Artifact attribute)
OutputReagent (class in s4.clarity.step)
outputs (s4.clarity.configuration.ProcessType attribute)
(s4.clarity.scripts.StepEPP attribute)
P
parameters (s4.clarity.configuration.ProcessType attribute)
parent_process (s4.clarity.artifact.Artifact attribute)
parent_step (s4.clarity.artifact.Artifact attribute)
password (s4.clarity.researcher.Researcher attribute)
PENDING_STATUS (s4.clarity.configuration.Workflow attribute)
Permission (class in s4.clarity.permission)
permissions (s4.clarity.role.Role attribute)
permitted_containers (s4.clarity.configuration.StepConfiguration attribute)
permitted_control_types (s4.clarity.configuration.StepConfiguration attribute)
permitted_instrument_types (s4.clarity.configuration.StepConfiguration attribute)
pipe_to() (s4.clarity.file.File method)
place_plate_to_plate_match_wells() (in module s4.clarity.steputils.placement_utils)
Placement (class in s4.clarity.step)
placement() (s4.clarity.steputils.step_runner.StepRunner method)
placements (s4.clarity.container.Container attribute)
(s4.clarity.step.Step attribute)
(s4.clarity.step.StepPlacements attribute)
Pool (class in s4.clarity.step)
pool_step (s4.clarity.artifact.DemuxDetails attribute)
pooling (s4.clarity.step.Step attribute)
pooling() (s4.clarity.steputils.step_runner.StepRunner method)
pools (s4.clarity.step.StepPools attribute)
post() (s4.clarity.ElementFactory method)
post_and_parse() (s4.clarity.ClarityElement method)
(s4.clarity.configuration.StepConfiguration method)
post_tube_to_tube() (s4.clarity.steputils.step_runner.StepRunner method)
precision (s4.clarity.configuration.Udf attribute)
prefetch() (s4.clarity.scripts.StepEPP method)
prefetch_artifacts() (s4.clarity.steputils.step_runner.StepRunner method)
PREFETCH_INPUTS (s4.clarity.scripts.StepEPP attribute)
PREFETCH_OUTPUTS (s4.clarity.scripts.StepEPP attribute)
PREFETCH_SAMPLES (s4.clarity.scripts.StepEPP attribute)
presets (s4.clarity.configuration.Udf attribute)
Process (class in s4.clarity.process)
process (s4.clarity.step.Step attribute)
process_derived_samples() (s4.clarity.scripts.DerivedSampleAutomation method)
process_type (s4.clarity.configuration.StepConfiguration attribute)
(s4.clarity.process.Process attribute)
process_types (s4.clarity.configuration.Automation attribute)
ProcessTemplate (class in s4.clarity.configuration)
ProcessType (class in s4.clarity.configuration)
program_status (s4.clarity.step.Step attribute)
Project (class in s4.clarity.project)
project (s4.clarity.sample.Sample attribute)
properties (s4.clarity.configuration.Protocol attribute)
(s4.clarity.LIMS attribute)
(s4.clarity.configuration.StepConfiguration attribute)
Protocol (class in s4.clarity.configuration)
protocol (s4.clarity.configuration.Stage attribute)
protocol_step_index (s4.clarity.configuration.StepConfiguration attribute)
protocols (s4.clarity.configuration.Workflow attribute)
ProtocolStepField (class in s4.clarity.configuration)
put_and_parse() (s4.clarity.ClarityElement method)
(s4.clarity.configuration.StepConfiguration method)
Q
qc (s4.clarity.artifact.Artifact attribute)
qc_failed() (s4.clarity.artifact.Artifact method)
qc_passed() (s4.clarity.artifact.Artifact method)
query() (s4.clarity.ElementFactory method)
(s4.clarity.queue.Queue method)
query_uris() (s4.clarity.ElementFactory method)
Queue (class in s4.clarity.queue)
queue (s4.clarity.configuration.StepConfiguration attribute)
queue_fields (s4.clarity.configuration.StepConfiguration attribute)
queued_artifacts (s4.clarity.queue.Queue attribute)
queued_stages (s4.clarity.artifact.Artifact attribute)
R
raise_if_present() (s4.clarity.ClarityException class method)
raise_on_exception() (s4.clarity.ClarityException class method)
raw_request() (s4.clarity.LIMS method)
rc_to_well() (s4.clarity.container.ContainerType method)
read() (s4.clarity.file.File method)
readable() (s4.clarity.file.File method)
readline() (s4.clarity.file.File method)
readlines() (s4.clarity.file.File method)
reagent_category (s4.clarity.reagent_type.ReagentType attribute)
(s4.clarity.step.StepReagents attribute)
reagent_kit (s4.clarity.reagent_lot.ReagentLot attribute)
reagent_label (s4.clarity.step.OutputReagent attribute)
reagent_label_name (s4.clarity.artifact.Artifact attribute)
reagent_label_names (s4.clarity.artifact.Artifact attribute)
reagent_labels (s4.clarity.artifact.Artifact attribute)
(s4.clarity.artifact.DemuxArtifact attribute)
reagent_lots (s4.clarity.step.Step attribute)
(s4.clarity.step.StepReagentLots attribute)
ReagentKit (class in s4.clarity.reagent_kit)
ReagentLot (class in s4.clarity.reagent_lot)
reagents (s4.clarity.step.Step attribute)
ReagentType (class in s4.clarity.reagent_type)
record_details() (s4.clarity.steputils.step_runner.StepRunner method)
refresh() (s4.clarity.ClarityElement method)
(s4.clarity.configuration.StepConfiguration method)
(s4.clarity.process.Process method)
(s4.clarity.step.StepDetails method)
related_instruments (s4.clarity.instrument.Instrument attribute)
related_reagent_lots (s4.clarity.reagent_kit.ReagentKit attribute)
remove() (s4.clarity.configuration.Stage method)
(s4.clarity.configuration.Workflow method)
(s4.clarity.routing.Router method)
remove_from_workflow() (s4.clarity.step.ArtifactAction method)
remove_preset() (s4.clarity.configuration.Udf method)
remove_role() (s4.clarity.researcher.Researcher method)
repeat() (s4.clarity.step.ArtifactAction method)
replace_and_commit() (s4.clarity.file.File method)
replace_and_commit_from_local() (s4.clarity.file.File method)
replicates (s4.clarity.step.AvailableInput attribute)
replicates_for_control() (s4.clarity.steputils.step_runner.StepRunner method)
replicates_for_inputuri() (s4.clarity.steputils.step_runner.StepRunner method)
report_error() (s4.clarity.step.StepProgramStatus method)
report_ok() (s4.clarity.step.StepProgramStatus method)
report_warning() (s4.clarity.step.StepProgramStatus method)
request() (s4.clarity.LIMS method)
required_reagent_kits (s4.clarity.configuration.StepConfiguration attribute)
Researcher (class in s4.clarity.researcher)
researcher (s4.clarity.project.Project attribute)
researchers (s4.clarity.role.Role attribute)
review() (s4.clarity.step.ArtifactAction method)
rework() (s4.clarity.step.ArtifactAction method)
rework_step_uri (s4.clarity.step.ArtifactAction attribute)
Role (class in s4.clarity.role)
roles (s4.clarity.researcher.Researcher attribute)
route_to_next_protocol() (in module s4.clarity.steputils.actions)
route_to_stage_by_name() (in module s4.clarity.steputils.actions)
Router (class in s4.clarity.routing)
row_major_order_wells() (s4.clarity.container.ContainerType method)
row_order_sort_keys() (in module s4.clarity.steputils.placement_utils)
row_order_wells() (s4.clarity.container.ContainerType method)
run() (s4.clarity.scripts.DerivedSampleAutomation method)
(s4.clarity.scripts.GenericScript method)
(s4.clarity.scripts.TriggeredStepEPP method)
(s4.clarity.steputils.step_runner.StepRunner method)
run_to_state() (s4.clarity.steputils.step_runner.StepRunner method)
S
s4.clarity (module)
s4.clarity.steputils.actions (module)
s4.clarity.steputils.copyudfs (module)
s4.clarity.steputils.file_utils (module)
s4.clarity.steputils.placement_utils (module)
s4.clarity.steputils.step_average_utils (module)
s4.clarity.steputils.step_runner (module)
s4.clarity.utils.artifact_ancestry (module)
Sample (class in s4.clarity.sample)
sample (s4.clarity.artifact.Artifact attribute)
sample() (s4.clarity.LIMS method)
sample_fields (s4.clarity.configuration.StepConfiguration attribute)
samples (s4.clarity.artifact.Artifact attribute)
(s4.clarity.artifact.DemuxArtifact attribute)
save_file_to_path() (in module s4.clarity.steputils.file_utils)
seek() (s4.clarity.file.File method)
seek_to_end() (s4.clarity.file.File method)
seekable() (s4.clarity.file.File method)
selected_containers (s4.clarity.step.StepPlacements attribute)
serial_number (s4.clarity.instrument.Instrument attribute)
set_artifact_udf_as_user() (s4.clarity.steputils.step_runner.StepRunner method)
set_default_preset() (s4.clarity.configuration.Udf method)
set_location() (s4.clarity.sample.Sample method)
set_location_coords() (s4.clarity.sample.Sample method)
set_location_well() (s4.clarity.sample.Sample method)
set_next_actions() (in module s4.clarity.steputils.actions)
set_qc_flag() (s4.clarity.artifact.Artifact method)
set_step_udf_as_user() (s4.clarity.steputils.step_runner.StepRunner method)
setup() (s4.clarity.steputils.step_runner.StepRunner method)
ShellScript (class in s4.clarity.scripts)
show_in_lablink (s4.clarity.configuration.Udf attribute)
show_in_tables (s4.clarity.configuration.Udf attribute)
single_step (s4.clarity.control_type.ControlType attribute)
size (s4.clarity.container.ContainerDimension attribute)
sorted_input_sample_iomaps() (s4.clarity.step.StepDetails method)
special_type (s4.clarity.reagent_type.ReagentType attribute)
Stage (class in s4.clarity.configuration)
stage (s4.clarity.artifact.WorkflowStageHistory attribute)
stage_from_id() (s4.clarity.configuration.Workflow method)
stage_from_uri() (s4.clarity.LIMS method)
stages (s4.clarity.configuration.Workflow attribute)
standard_sort_key() (in module s4.clarity.utils)
state (s4.clarity.container.Container attribute)
status (s4.clarity.artifact.WorkflowStageHistory attribute)
(s4.clarity.configuration.Workflow attribute)
(s4.clarity.reagent_lot.ReagentLot attribute)
(s4.clarity.step.StepProgramStatus attribute)
Step (class in s4.clarity.step)
step (s4.clarity.configuration.Stage attribute)
(s4.clarity.step.StepActions attribute)
(s4.clarity.step.StepPlacements attribute)
(s4.clarity.step.StepProgramStatus attribute)
step() (s4.clarity.configuration.Protocol method)
(s4.clarity.LIMS method)
step_config (s4.clarity.steputils.step_runner.StepRunner attribute)
step_fields (s4.clarity.configuration.StepConfiguration attribute)
step_from_id() (s4.clarity.configuration.Protocol method)
step_from_uri() (s4.clarity.LIMS method)
step_uri (s4.clarity.step.ArtifactAction attribute)
StepActions (class in s4.clarity.step)
StepConfiguration (class in s4.clarity.configuration)
stepconfiguration_from_uri() (s4.clarity.LIMS method)
StepDetails (class in s4.clarity.step)
StepEPP (class in s4.clarity.scripts)
StepFactory (class in s4.clarity)
StepPlacements (class in s4.clarity.step)
StepPools (class in s4.clarity.step)
StepProgramStatus (class in s4.clarity.step)
StepReagentLots (class in s4.clarity.step)
StepReagents (class in s4.clarity.step)
StepRunner (class in s4.clarity.steputils.step_runner)
StepRunnerException
steps (s4.clarity.configuration.Protocol attribute)
StepTrigger (class in s4.clarity.step)
storage_location (s4.clarity.reagent_lot.ReagentLot attribute)
str_to_date() (in module s4.clarity.utils)
str_to_datetime() (in module s4.clarity.utils)
style (s4.clarity.configuration.ProtocolStepField attribute)
supplier (s4.clarity.control_type.ControlType attribute)
(s4.clarity.reagent_kit.ReagentKit attribute)
T
technician (s4.clarity.process.Process attribute)
tell() (s4.clarity.file.File method)
TEXT_LOG_FORMAT (s4.clarity.scripts.GenericScript attribute)
total_capacity (s4.clarity.container.ContainerType attribute)
transitions (s4.clarity.configuration.StepConfiguration attribute)
triggered_step_actions (s4.clarity.scripts.TriggeredStepEPP attribute)
TriggeredStepEPP (class in s4.clarity.scripts)
triggers (s4.clarity.configuration.StepConfiguration attribute)
truncate() (s4.clarity.file.File method)
type (s4.clarity.artifact.Artifact attribute)
(s4.clarity.configuration.ProcessTemplate attribute)
type_name (s4.clarity.container.Container attribute)
U
Udf (class in s4.clarity.configuration)
UdfFactory (class in s4.clarity)
unassign() (s4.clarity.routing.Router method)
unavailable_wells (s4.clarity.container.ContainerType attribute)
uri (s4.clarity.artifact.WorkflowStageHistory attribute)
usage_count (s4.clarity.reagent_lot.ReagentLot attribute)
UserMessageException (class in s4.clarity.scripts)
username (s4.clarity.researcher.Researcher attribute)
W
wait_for_epp() (s4.clarity.step.Step method)
website (s4.clarity.control_type.ControlType attribute)
(s4.clarity.reagent_kit.ReagentKit attribute)
well_to_rc() (s4.clarity.container.ContainerType method)
Workflow (class in s4.clarity.configuration)
workflow (s4.clarity.configuration.Stage attribute)
workflow_stages (s4.clarity.artifact.Artifact attribute)
WorkflowStageHistory (class in s4.clarity.artifact)
WorkflowTest (class in s4.clarity.scripts)
writable() (s4.clarity.file.File method)
write() (s4.clarity.file.File method)
writelines() (s4.clarity.file.File method)
X
x_dimension (s4.clarity.container.ContainerType attribute)
x_dimension_range() (s4.clarity.container.ContainerType method)
xml_root (s4.clarity._internal.FieldsMixin attribute)
(s4.clarity.ClarityElement attribute)
Y
y_dimension (s4.clarity.container.ContainerType attribute)
y_dimension_range() (s4.clarity.container.ContainerType method)
S4-Clarity Library
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