Update the micro workflow

[FayKanellidou]

Lims Issue

For definitions of headings below see Basic Concepts.

Work Flow: Microbial WGS v7 Protocol: CG002 - Normalization of microbial samples, Pre Processing Microbial v1, Nextera Microbial WGS v4 Step: CG002 - Normalization of microbial samples for sequencing, Reception Control, Normalization of microbial samples v2

Description: In connection with this issue

In CG002 - Normalization of microbial samples for sequencing please include a udf with the Barcode document

In the Reception Control please include a udf again with the Barcode document](https://atlas.scilifelab.se/production/lab/supporting_procedures/barcodes_at_cg/) and another one with the microbial method document

In the Normalization of microbial samples v2 please add an extra option in the udf "Supporting Procedure Document" a manual option.

[idalindegaard]

I did the wished changes.

• [x] New required "Library Preparation Method" UDF in Reception Control with the option "Manual cost-efficient library preparation for microbial WGS"
• [x] New non-required "Supporting Procedure Document" UDF in Reception Control with the option "Barcodes at Clinical Genomics". It is not a pre-chosen option
• [x] In Reception control when exiting the step, there is an automatic automation that runs Atlas Method Document to record the method documents chosen and their versions. See below on "Extra", because I did a modification of another automation to make it work
• [x] In Normalization of microbial samples v2 I added a new UDF "Supporting Procedure Document 2" as non-required and with the not pre-chosen option "Barcodes at Clinical Genomics".

Note: We cannot add "Manual" as an option for the udf Supporting Procedure Document, since the Atlas method document script needs the title of an actual document that we have at CG. I made the udf "not required" so there is an option to fill it in.

Extra: Made a combo automation so that automations "Atlas Method Document" and "Check missing sample udfs and set Next Step Remove" can run at the same time when exiting Record Details in step Reception Control in Pre Processing Microbial v1. The new automation is called "Check missing sample udfs + set Next Step Remove + Atlas Method Document micro", see issue #512 where it was tested and documented further

[idalindegaard]

@FayKanellidou Done and you can close/finish up the issues :)

Greaaaat thanks 💕!