Index

_

__getnewargs__() (niprov.querying.QueryField method) __getstate__() (niprov.querying.QueryField method)

__repr__() (niprov.querying.QueryField method)

A

add() (in module niprov.adding) (niprov.context.ProvenanceContext method) (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.repository.Repository method) addUnknownParent() (niprov.commandline.Commandline method) all (niprov.querying.QueryField attribute) all() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.querying.Query method) (niprov.repository.Repository method) allModalities() (niprov.querying.Query method) allProjects() (niprov.querying.Query method) allUsers() (niprov.querying.Query method) approve() (in module niprov.approval) (niprov.context.ProvenanceContext method)

areEqual() (niprov.diff.Diff method) areEqualProtocol() (niprov.diff.Diff method) asFilenameTree() (niprov.pipeline.Pipeline method) assertEqual() (niprov.diff.Diff method) assertEqualProtocol() (niprov.diff.Diff method) attach (niprov.config.Configuration attribute) attach() (niprov.basefile.BaseFile method) (niprov.fif.FifFile method) (niprov.nifti.NiftiFile method) attach_format (niprov.config.Configuration attribute)

B

backup() (in module niprov.exporting) (niprov.context.ProvenanceContext method) BaseFile (class in niprov.basefile) blocksize (niprov.hashing.Hasher attribute) byApproval() (niprov.querying.Query method) (niprov.repository.Repository method) byId() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.repository.Repository method) byLocation() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.querying.Query method) (niprov.repository.Repository method)

byLocations() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.repository.Repository method) byModality() (niprov.querying.Query method) byParents() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) byProject() (niprov.querying.Query method) bySubject() (niprov.querying.Query method) (niprov.repository.Repository method) byUser() (niprov.querying.Query method)

C

Camera (class in niprov.camera) Clock (class in niprov.clock) Commandline (class in niprov.commandline) compare() (in module niprov.comparing) (niprov.basefile.BaseFile method) (niprov.context.ProvenanceContext method)

completeString() (niprov.locationfactory.LocationFactory method) Configuration (class in niprov.config) copiesOf() (niprov.querying.Query method) create() (niprov.formatfactory.FormatFactory method) (niprov.mediumfactory.MediumFactory method)

D

database_type (niprov.config.Configuration attribute) database_url (niprov.config.Configuration attribute) DateTimeAwareJSONDecoder (class in niprov.formatjson) DateTimeAwareJSONEncoder (class in niprov.formatjson) default() (niprov.formatjson.DateTimeAwareJSONEncoder method) defaultIgnore (niprov.diff.Diff attribute) deflate() (niprov.mongo.MongoRepository method) Dependencies (class in niprov.dependencies) deserialize() (niprov.formatjson.JsonFormat method) deserializeList() (niprov.formatjson.JsonFormat method) determineUser() (niprov.users.Users method)

DicomFile (class in niprov.dcm) dict_to_object() (niprov.formatjson.DateTimeAwareJSONDecoder method) DictFormat (class in niprov.formatdict) Diff (class in niprov.diff) digest() (niprov.hashing.Hasher method) DirectMedium (class in niprov.mediumdirect) discover() (in module niprov.discovery) (niprov.context.ProvenanceContext method) discover_file_extensions (niprov.config.Configuration attribute) discoveryFinished() (niprov.commandline.Commandline method) dryrun (niprov.config.Configuration attribute)

E

export() (in module niprov.exporting) (niprov.context.ProvenanceContext method) (niprov.mediumdirect.DirectMedium method) (niprov.mediumfile.FileMedium method) (niprov.mediumstdout.StandardOutputMedium method) (niprov.mediumviewer.ViewerMedium method) exportedToFile() (niprov.commandline.Commandline method)

Externals (class in niprov.externals)

F

FifFile (class in niprov.fif) fileAdded() (niprov.commandline.Commandline method) fileError() (niprov.commandline.Commandline method) fileExists() (niprov.filesystem.Filesystem method) FileFilter (class in niprov.filefilter) FileMedium (class in niprov.mediumfile)

filesMarkedForApproval() (niprov.commandline.Commandline method) Filesystem (class in niprov.filesystem) forFile() (niprov.pipelinefactory.PipelineFactory method) Format (class in niprov.format) FormatFactory (class in niprov.formatfactory) fromString() (niprov.locationfactory.LocationFactory method)

G

get() (niprov.context.ProvenanceContext method) getBytes() (niprov.pictures.PictureCache method) getCamera() (niprov.dependencies.Dependencies method) getClock() (niprov.dependencies.Dependencies method) getConfiguration() (niprov.dependencies.Dependencies method) getctime() (niprov.filesystem.Filesystem method) getDifferences() (niprov.diff.Diff method) getDifferenceString() (niprov.diff.Diff method) getElementById() (in module niprov.xmllib) getElementsByTagNameWithoutPrefix() (in module niprov.xmllib) getExternals() (niprov.dependencies.Dependencies method) getFields() (niprov.querying.Query method) getFileFactory() (niprov.dependencies.Dependencies method) getFileFilter() (niprov.dependencies.Dependencies method) getFilepath() (niprov.pictures.PictureCache method) getFilesystem() (niprov.dependencies.Dependencies method) getFormatFactory() (niprov.dependencies.Dependencies method) getHasher() (niprov.dependencies.Dependencies method) getLibraries() (niprov.dependencies.Dependencies method) getListener() (niprov.dependencies.Dependencies method) getLocationFactory() (niprov.dependencies.Dependencies method)

getMediumFactory() (niprov.dependencies.Dependencies method) getNonTextChildNodes() (in module niprov.xmllib) getNowString() (niprov.clock.Clock method) getPictureCache() (niprov.dependencies.Dependencies method) getPipelineFactory() (niprov.dependencies.Dependencies method) getProtocolFields() (niprov.basefile.BaseFile method) getProvenance() (niprov.basefile.BaseFile method) getQuery() (niprov.dependencies.Dependencies method) getRefForFirstElementByTag() (in module niprov.xmllib) getRepository() (niprov.dependencies.Dependencies method) getSame() (niprov.diff.Diff method) getSameString() (niprov.diff.Diff method) getSerializer() (niprov.dependencies.Dependencies method) getSeries() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.repository.Repository method) getSeriesId() (niprov.basefile.BaseFile method) (niprov.dcm.DicomFile method) getsize() (niprov.filesystem.Filesystem method) getSnapshotFilepath() (niprov.basefile.BaseFile method) getTextContent() (in module niprov.xmllib) getTextContentForFirstElementByTag() (in module niprov.xmllib) getUsers() (niprov.dependencies.Dependencies method)

H

handler() (in module niprov.mnefunsupport) hasDependency() (niprov.libraries.Libraries method) hasFile() (niprov.dcm.DicomFile method)

Hasher (class in niprov.hashing) home() (in module niprov.views)

I

importp() (in module niprov.importing) (niprov.context.ProvenanceContext method) include() (niprov.filefilter.FileFilter method) inflate() (niprov.mongo.MongoRepository method) inheritFrom() (in module niprov.inheriting)

inquire() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) inspect() (in module niprov.inspection) (niprov.basefile.BaseFile method) (niprov.cnt.NeuroscanFile method) (niprov.context.ProvenanceContext method) (niprov.dcm.DicomFile method) (niprov.fif.FifFile method) (niprov.nifti.NiftiFile method) interpretedRecording() (niprov.commandline.Commandline method)

J

JsonFile (class in niprov.jsonfile)

JsonFormat (class in niprov.formatjson)

K

keep() (niprov.pictures.PictureCache method) keepVersionsFromPrevious() (niprov.basefile.BaseFile method) knows() (niprov.repository.Repository method)

knowsByLocation() (niprov.repository.Repository method) knowsSeries() (niprov.repository.Repository method)

L

latest() (in module niprov.views) (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.querying.Query method) (niprov.repository.Repository method) Libraries (class in niprov.libraries) Location (class in niprov.location)

location() (in module niprov.views) LocationFactory (class in niprov.locationfactory) log() (in module niprov.plogging) (niprov.commandline.Commandline method) (niprov.context.ProvenanceContext method)

M

main() (in module niprov.webapp) markedForApproval() (in module niprov.approval) (niprov.context.ProvenanceContext method) markForApproval() (in module niprov.approval) (niprov.context.ProvenanceContext method) MediumFactory (class in niprov.mediumfactory) mergeWith() (niprov.dcm.DicomFile method)

missingDependencyForImage() (niprov.commandline.Commandline method) mnefunEventReceived() (niprov.commandline.Commandline method) modalities() (in module niprov.views) modality() (in module niprov.views) MongoRepository (class in niprov.mongo)

N

name (niprov.querying.QueryField attribute) NarratedFormat (class in niprov.formatnarrated) NCHARSCOL (niprov.diff.Diff attribute) NeuroscanFile (class in niprov.cnt) new() (niprov.pictures.PictureCache method) NiftiFile (class in niprov.nifti) niprov (module) niprov.adding (module) niprov.approval (module) niprov.basefile (module) niprov.camera (module) niprov.capturing (module) niprov.clock (module) niprov.cnt (module) niprov.commandline (module) niprov.comparing (module) niprov.config (module) niprov.context (module) niprov.dcm (module) niprov.dependencies (module) niprov.diff (module) niprov.discovery (module) niprov.exceptions (module) niprov.exporting (module) niprov.externals (module) niprov.fif (module) niprov.filefilter (module) niprov.filesystem (module) niprov.format (module) niprov.formatdict (module) niprov.formatfactory (module) niprov.formatjson (module) niprov.formatnarrated (module)

niprov.formatobject (module) niprov.formatsimple (module) niprov.formatxml (module) niprov.hashing (module) niprov.importing (module) niprov.inheriting (module) niprov.inspection (module) niprov.jsonfile (module) niprov.libraries (module) niprov.location (module) niprov.locationfactory (module) niprov.mediumdirect (module) niprov.mediumfactory (module) niprov.mediumfile (module) niprov.mediumstdout (module) niprov.mediumviewer (module) niprov.mnefunsupport (module) niprov.mongo (module) niprov.nifti (module) niprov.pictures (module) niprov.pipeline (module) niprov.pipelinefactory (module) niprov.plogging (module) niprov.querying (module) niprov.recording (module) niprov.renaming (module) niprov.repository (module) niprov.searching (module) niprov.users (module) niprov.views (module) niprov.webapp (module) niprov.xmllib (module) NiprovError

O

ObjectFormat (class in niprov.formatobject) ordinal() (in module niprov.commandline)

OutputCapture (class in niprov.capturing)

P

parents (niprov.basefile.BaseFile attribute) PictureCache (class in niprov.pictures) Pipeline (class in niprov.pipeline) pipeline() (in module niprov.views) PipelineFactory (class in niprov.pipelinefactory)

print_() (in module niprov.exporting) (niprov.context.ProvenanceContext method) project() (in module niprov.views) projects() (in module niprov.views) ProvenanceContext (class in niprov.context)

Q

Query (class in niprov.querying)

QueryField (class in niprov.querying)

R

read() (niprov.filesystem.Filesystem method) readlines() (niprov.filesystem.Filesystem method) receivedBashCommand() (niprov.commandline.Commandline method) reconfigureOrGetConfiguration() (niprov.dependencies.Dependencies method) record() (in module niprov.recording) (niprov.context.ProvenanceContext method)

renamedDicom() (niprov.commandline.Commandline method) renameDicoms() (in module niprov.renaming) (niprov.context.ProvenanceContext method) Repository (class in niprov.repository) Result (class in niprov.externals) run() (niprov.externals.Externals method)

S

saveSnapshot() (niprov.camera.Camera method) saveToDisk() (niprov.pictures.PictureCache method) search() (in module niprov.searching) (in module niprov.views) (niprov.context.ProvenanceContext method) (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) selectApproved() (in module niprov.approval) (niprov.context.ProvenanceContext method) serialize() (niprov.format.Format method) serializeAndWrite() (niprov.jsonfile.JsonFile method) serializeList() (niprov.format.Format method) (niprov.formatdict.DictFormat method) (niprov.formatjson.JsonFormat method) (niprov.formatobject.ObjectFormat method) (niprov.formatsimple.SimpleFormat method) (niprov.formatxml.XmlFormat method) serializePipeline() (niprov.format.Format method) (niprov.formatobject.ObjectFormat method) (niprov.formatsimple.SimpleFormat method) serializeSingle() (niprov.format.Format method) (niprov.formatdict.DictFormat method) (niprov.formatjson.JsonFormat method) (niprov.formatnarrated.NarratedFormat method) (niprov.formatobject.ObjectFormat method) (niprov.formatsimple.SimpleFormat method) (niprov.formatxml.XmlFormat method) (niprov.pictures.PictureCache method)

serializeStatistics() (niprov.format.Format method) (niprov.formatobject.ObjectFormat method) (niprov.formatsimple.SimpleFormat method) serializeSummary() (niprov.formatsimple.SimpleFormat method) serve() (in module niprov.webapp) short() (in module niprov.views) SimpleFormat (class in niprov.formatsimple) StandardOutputMedium (class in niprov.mediumstdout) statistics() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.querying.Query method) stats() (in module niprov.views) subject() (in module niprov.views)

T

takeSnapshot() (niprov.camera.Camera method) toDictionary() (niprov.location.Location method)

toString() (niprov.location.Location method) toUrl() (niprov.location.Location method)

U

UnknownFileError update() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.repository.Repository method) updateApproval() (niprov.jsonfile.JsonFile method) (niprov.mongo.MongoRepository method) (niprov.repository.Repository method) user (niprov.config.Configuration attribute)

user() (in module niprov.views) Users (class in niprov.users) users() (in module niprov.views) usingCopyAsParent() (niprov.commandline.Commandline method)

V

value (niprov.querying.QueryField attribute) verbosity (niprov.config.Configuration attribute) versions (niprov.basefile.BaseFile attribute) view() (in module niprov.exporting) (niprov.context.ProvenanceContext method)

ViewerMedium (class in niprov.mediumviewer) viewSnapshot() (niprov.basefile.BaseFile method) vlevels (niprov.commandline.Commandline attribute)

W

walk() (niprov.filesystem.Filesystem method)

write() (niprov.filesystem.Filesystem method)

X

XmlFormat (class in niprov.formatxml)