Adds Adipose tier2 fields

[idazucchi]

Release notes

This PR adds the tier 2 fields requested by the Adipose bionetwork (reference sheet here) - none of the fields added in this PR are required

New optional fields

For module/biomaterial/reproductive_history.json:

• menstrual_cycle_stage

For module/biomaterial/blood_test.json:

• androstenedione
• androstenedione_unit
• dhea
• dhea_unit
• estrogen
• estrogen_unit
• fasting_glucose
• fasting_glucose_unit
• fasting_insulin
• fasting_insulin_unit
• free_fatty_acid
• free_fatty_acid_unit
• haematocrit
• haematocrit_unit
• haemoglobin
• haemoglobin_unit
• hba1c
• hba1c_unit
• hdl
• hdl_unit
• homa_ir
• ldl
• ldl_unit
• platelet_count
• platelet_count_unit
• shbg
• shbg_unit
• testosterone
• testosterone_unit
• triglycerides
• triglycerides_unit
• white_blood_cell_count
• white_blood_cell_count_unit
• bloodtest_time_offset
• bloodtest_time_offset

For type/protocol/biomaterial_collection/collection_protocol.json :

• biopsy_procedure

For type/biomaterial/specimen_from_organism.json :

• experimental_condition
• time_to_laboratory

For type/biomaterial/cell_suspension.json :

• nuclei_yield

For module/biomaterial/medical_history.json :

• fasting_time

For module/biomaterial/lifestyle.json :

• physical_activity

For type/protocol/sequencing/library_preparation_protocol.json :

• processing_time

For module/biomaterial/human_specific.json :

• waist_circumference
• waist_hip_ratio

Changes to existing fields

For module/biomaterial/human_specific.json:

• body_mass_index : changed the type to string, extended validation to number range so it's still complatible with previous versions field

Reviews requested

Need 4 Reviewers to approve because this is a major update

[hannes-ucsc]

I can review again once the conflicts have been resolved.

[hannes-ucsc]

Apologies for being slow to respond. There are conflicts, still (or again). I will review again once the conflicts have been resolved.

[idazucchi]

Hi @hannes-ucsc!
I misunderstood your earlier comments about the unresolved conflicts, but I've resolved them now
I've also applied your regex suggestion to all the new fields that had a similar regex(body_mass_index, waist_circumference, waist_hip_ratio, time_to_laboratory), based on your comments on the Heart PR

[hannes-ucsc]

Sorry, previous review was meant to request changes.

[idazucchi]

I've added ranges to the examples where relevant, as we've done for other fields like age