`scriptutils.package_production`

Module Contents

Functions

`build_distribution`(root: str, packages: list[str]) → sbol3.Document	Given a package specification and an inventory of parts, unify them into a complete SBOL3 package & write it out
`collate_package`(package: str) → None	Given a package specification and an inventory of parts, unify them into a complete SBOL3 package & write it out
`expand_build_plan`(package: str) → sbol3.Document	Expand the build plans (libraries & composites sheet) in a package's collated SBOL3 Document
`extract_synthesis_files`(root: str, doc: sbol3.Document) → sbol3.Document	Export the products to be built from a package/distribution document as GenBank and FASTA

Attributes

BUILD_PRODUCTS_COLLECTION

BUILD_PRODUCTS_COLLECTION = BuildProducts

build_distribution(root: str, packages: list[str]) → sbol3.Document

Given a package specification and an inventory of parts, unify them into a complete SBOL3 package & write it out

Parameters

root – location for distribution
packages – list of packages to include in distribution

Returns

document for joint package

collate_package(package: str) → None

Given a package specification and an inventory of parts, unify them into a complete SBOL3 package & write it out

Parameters: package – path of package to search
Returns: None: would return document, except that rewriting requires change to RDF graph

expand_build_plan(package: str) → sbol3.Document

Expand the build plans (libraries & composites sheet) in a package’s collated SBOL3 Document Also attempt to compute all missing sequences (including those of the build plans)

Parameters: package – path of package to operate on
Returns: Updated document

extract_synthesis_files(root: str, doc: sbol3.Document) → sbol3.Document

Export the products to be built from a package/distribution document as GenBank and FASTA Note: FASTA is set up for Twist Synthesis, with the identity of the build product on the sequence of the insert FASTA descriptions must be blank, as they will otherwise be munged together with the display_id