Release v7.19.3

Run Design patch for SMRT Link 25.1 (#579)(patch)

Fixed

• Patched the Run Design creator to comply with the changes introduced in SMRT Link v25.1

Release v7.19.2

Patch broken error handling in new quantit parser (#578)(patch)

Fixed

• The error messages sent out in the new Quant-iT parser

Release v7.19.1

Volume as process udf to calculate amount (#577)

Added

• The option to calculate the amount with the volume as a process udf in the step

Release v7.19.0

Transfer file2udf_quantit_qc to cg_lims and update file_to_udf (#574)(minor)

Added

• New EPP, cg_lims/EPPs/files/parsers/quantit_excel_to_udf.py
• New common functions in cg_lims/get/fields.py
• New common functions in cg_lims/get/artifacts.py
• New features in cg_lims/EPPs/files/parsers/file_to_udf.py for parsing a multitude of values and files

Changed

• Moved all parser EPPs into a common sub dir, cg_lims/EPPs/files/parsers
• Refactored the CSV parser, cg_lims/EPPs/files/parsers/file_to_udf.py

Release v7.18.1

Patch for multiple apptags (#575)(patch)

Fixed

• Patch the use of multiple apptags to filter on for the top-up summary script

Release v7.18.0

New Femtopulse csv file EPP (#569) (minor)

Added

• New EPP "Create Femtopulse Run File"

Release v7.17.5

New Elution Buffer fields in Arnold twist (#570)

Added

• New process UDFs: "Lot no: Elution Buffer" in buffer_exchange.py, aliquot_samples_for_enzymatic_fragmentation_trist.py and bead_purification_twist.py

Release v7.17.4

SMRT Link EPPs (#563)

Added

• New EPP for creating Sample Setup CSVs
• New EPP for creating pooling calculation CSVs
• New EPP for calculating Revio pooling volumes
• New EPP for automatically setting Revio sequencing options
• New models and classes for SMRT Link CSV creation

Release v7.17.3

Update Calculate Amount scripts for more flexibility (#562)

Changes are needed for the new Pacbio Revio workflow but they also affect many other steps that have different types of calculate amount automations using the same script

Changed

For script calculate_amount_ng.py:

• From options.py, "subtract_volume_option" was substituted with "subtract_volume" as it offers more flexibility
• From options.py, "preset_volume" was added so that a volume specified in the cli can be used in the calculation

For script twist_qc_amount.py:

• From options.py, "subtract_volume" was added and substitutes the hardcoded volume subtraction in the script - the value can be modified in the cli command instead.
• Its pytest test_twist_qc_amount.py was modified to reflect the added option mentioned above

Release v7.17.2

New Novaseq X volume constants (#561)

A patch after the change in issue #522

Added

• new denaturation volume constants in constants.py
• updated which constants to use in novaseq_x_denaturation.py