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sanger / crawler

Store sample data from Lighthouse labs
MIT License
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GPL-983-03 Support new barcode format HSLnnnnnn #320

Closed harrietc52 closed 3 years ago

harrietc52 commented 3 years ago

User story As PAM, I want to support HSL barcodes in Sequencescape for automatic creation through lighthouse workflows (Sentinel and Beckman) The new barcode format to support is: HSLnnnnnn (e.g. HSL123456)

Original story GPL-983

Who are the primary contacts for this story Alan K.

Acceptance criteria Confirm below values

    {
        "barcode_field": FIELD_RNA_ID,
        "barcode_regex": CENTRE_REGEX_BARCODE,
        "name": "Health Services Laboratories",
        "prefix": "HSL",
        "lab_id_default": "HSL",
        "backups_folder": f"{CENTRE_DIR_BACKUPS}/HSL",
        "sftp_file_regex_unconsolidated_surveillance": f"",
        "sftp_file_regex_consolidated_surveillance": r"^",
        "sftp_file_regex_consolidated_eagle": r"",
        "sftp_root_read": "",
        "file_names_to_ignore": [],
        "biomek_labware_class": BIOMEK_LABWARE_CLASS_KINGFISHER,
    },

Dependencies This story is related with story: sanger/baracoda#111 This story is coupled with SS https://github.com/sanger/sequencescape/issues/3164

Additional context Add any other context or screenshots about the feature request here.

emrojo commented 3 years ago

Answer from Ian K.

  1. Yes plan is to have these uploaded to the SFTP with the file name to be that of the plate ID. So “HSLnnnnnn.csv”.
  2. Is lab ID distinct from COG UK ID? We are using “HSLL” as COG-UK ID so seems sensible to keep aligned.
  3. Will be uploaded to a new folder in the SFTP: /project-heron_hsl

Will need to format this into acceptance criteria for the story.

harrietc52 commented 3 years ago

Closing as Issue has been moved to GPL-985