first commit

[edsu7]

Added

• waste water schema
• working tested data from calgary, ontario, quebec, alberta
• errors from initial upload

Notes regarding schema

• duplicate fields? sequenced by or sequenced submitted by
• in schema, values are captured GENEPIO:0100849 artic-v3 with ONTOLOGY ID + Value, in test data only values are provided
• date regex is YYYY_MM_DD
• time regex is NN:NN NNNN
• check external database regex
• the following fields were indicates as required, to track when value is not provided added a null value column
  • sample collected by : sample collect by null reason
  • sequence submitted by : sequence submitted by null reason
  • sample collection date : sample collection date null reason
• the following field are indicated to be null enum list and another data type (not doable), will have to be enum or strictly other data type
  • sample received date
  • sample processing date
  • sample collection time duration value
  • presampling activity details
  • water catchment area human population measurement value
  • precipitation measurement value
  • sequence submitter contact email
  • raw sequence data processing method

Notes regarding test data

• all provinces
  • missing required isolate ID,read mapping software name,read mapping software version,sequenced by contact name, and sequencing instrument
  • need to add Influenza A to organism list

Things left to do

• test field dependencies once conditional checks are enabled in lectern
• fix incorrect displayNames
• remove sequenced by