Full text search: searching on samples

[bbimber]

The DISCVRseq tool will index a field called variableSamples. This should be considered an array of the sample names that are variable at that position (though I dont know how lucene technically treats it). This is a really important user-facing search type. For these examples, let's assume we have these two rows:

Row1: variableSamples=sample1,sample2,sample30 Row2: variableSamples=sample2,sample3,sample10

Example queries are:

• On the client, the use needs to search "find sites where sample1 has a variant". This should return row 1, but not row 2. We cannot do a naive string match, since the string from row 2 has "sample10" and this contains "sample1". We need integration testing on this behavior.
• Similar to above, we need an operator for "not variable", and this needs to respect the same kind of contains behavior.
• Need a way to supply a list of sample names. An operator should be "variable in all of"
• Need a way to supply a list of sample names. An operator should be "variable in any of"
• Need a way to supply a list of sample names. An operator should be "not variable in any of"
• Need a way to supply a list of sample names. An operator should be "not variable in one of" (not sure if we really need this)
• All of those need integration test cases

The client-side code needs a special field type for sample.

• That field type has these unique operators
• needs to construct the right kind of lucene string
• needs validation over the user input into the field
• for the time being, the sample field can be free-text entry. Eventually the server could supply/validate sample names but let's punt for now.

Reach goal:

• See extension related to groups of samples.

[bbimber]

Should also be case insensitive and have testing on that