cavm.db

XenaDb
protocol
Xena database protocol

members
close
(close this)
Close the database.

column-query
(column-query this query)
Execute a sql query against abstract column store.
<query> is a honeysql map.
delete-matrix
(delete-matrix this mname)
Remove a dataset from the database.
<mname> --- the (unique) name of the dataset.
fetch
(fetch this reqs)
Retrieve rows from specified fields in a dataset,
matching a list of sampleIDs, as an array of floats.

reqs is an array of maps
[{:table <dataset_name>
  :columns [<field_name>, ...]
  :samples [<sampleID>, <sampleID>, ..]}, ...]
run-query
(run-query this query)
Execute a sql query.
<query> is a honeysql map.
write-matrix
(write-matrix this mname files metadata data-fn features always)
Write a dataset to the database.
<mname> --- the (unique) name of the dataset.
<files> ---  a vector of file names that were read for the dataset.
<metadata> ---  a map of metadata to be associated with the dataset.
<data-fn> --- a function returning the data of each field in the dataset.
<features> --- a map of metadata describing the fields.
<always> --- force update of database, even if the files are unchanged
             since the last load of this dataset.