Cavm 0.25.0-SNAPSHOT API documentation

Public variables and functions:

• authenticated-user?
• check-oauth-token
• client-id
• client-secret
• google-authentication-handler
• google-authentication-request
• google-openid-discovery-document
• google-openid-discovery-url
• load-users
• login-failed-page
• logout-user
• make-verifier
• valid-user-email?
• wrap-google-authentication

Public variables and functions:

• authenticated-user?
• check-oauth-token
• client-id
• client-secret
• google-authentication-handler
• google-authentication-request
• google-openid-discovery-document
• google-openid-discovery-url
• load-users
• login-failed-page
• logout-user
• make-verifier
• valid-user-email?
• wrap-google-authentication

Public variables and functions:

• calc-bin
• overlapping-bins

Public variables and functions:

• calc-bin
• overlapping-bins

Public variables and functions:

Public variables and functions:

Public variables and functions:

• ->Chrom
• ->ChromPosVec
• chrom-pos
• chrom-pos-vec
• map->Chrom
• strcpy

Public variables and functions:

• ->Chrom
• ->ChromPosVec
• chrom-pos
• chrom-pos-vec
• map->Chrom
• strcpy

Public variables and functions:

• watch-acquire
• watch-destroy

Public variables and functions:

• watch-acquire
• watch-destroy

Public variables and functions:

• pool

Public variables and functions:

• pool

Public variables and functions:

• -main
• async-post
• cohort-query
• icgc-xena
• load-edn-from
• local-trusted-host
• local-url
• local-xena
• max-threads
• pom-props
• public-url
• re-match
• retrieve-cohorts
• tcga-xena
• toil-xena
• trusted-hosts
• ucscPublic-xena
• validate-certkey
• version
• wrap-authentication
• wrap-db-loading
• wrap-ping
• wrap-resource-workaround

Public variables and functions:

• -main
• async-post
• cohort-query
• icgc-xena
• load-edn-from
• local-trusted-host
• local-url
• local-xena
• max-threads
• pom-props
• public-url
• re-match
• retrieve-cohorts
• tcga-xena
• toil-xena
• trusted-hosts
• ucscPublic-xena
• validate-certkey
• version
• wrap-authentication
• wrap-db-loading
• wrap-ping
• wrap-resource-workaround

Public variables and functions:

• XenaDb

Public variables and functions:

• XenaDb

Public variables and functions:

• check-files
• diff
• dir-change-queue
• dir-watcher
• file-timestamps
• poller
• sec
• type-file

Public variables and functions:

• check-files
• diff
• dir-change-queue
• dir-watcher
• file-timestamps
• poller
• sec
• type-file

Public variables and functions:

• handle-client
• jetty-config
• listen

Public variables and functions:

• handle-client
• jetty-config
• listen

Public variables and functions:

• cached?
• content-range
• date-header
• default-buffer-size
• file-output
• file-request
• file-response
• find-range
• get-date-header
• IToByteRange
• load-ranges
• matches
• multipart-boundary
• multipart-file-output
• multipart-response
• parse-long
• range-ex
• range-response
• resume?
• single-range-response
• write-all-output
• write-partial-output

Public variables and functions:

• cached?
• content-range
• date-header
• default-buffer-size
• file-output
• file-request
• file-response
• find-range
• get-date-header
• IToByteRange
• load-ranges
• matches
• multipart-boundary
• multipart-file-output
• multipart-response
• parse-long
• range-ex
• range-response
• resume?
• single-range-response
• write-all-output
• write-partial-output

Public variables and functions:

• ->foo
• ack
• map->foo

Public variables and functions:

• ->foo
• ack
• map->foo

Public variables and functions:

• docroot-path
• normalized-path
• relativize

Public variables and functions:

• docroot-path
• normalized-path
• relativize

Public variables and functions:

• ->H2Db
• bad-probemap-query
• bin-offset
• block-size
• collect-fields
• column-len-query
• concat-field-bins
• create-db
• create-xenadb
• dataset-id-by-name
• delete-dataset
• delete-if-probemap-invalid
• delete-rows-by-field-cmd
• do-command-while-updates
• eval-sql
• fetch-genes
• fetch-indexed
• fetch-position
• fetch-rows
• field-genes
• field-genes-by-row
• field-position
• field-position-by-row
• h2-log-level
• has-codes?
• has-genes?
• has-index?
• has-position?
• int-set-bins
• map->H2Db
• max-warnings
• mem-min
• migrate-probemap
• score-decode
• score-encode
• score-encode-orig
• set-of-all
• set-of-all-cache
• set-tmp-dir!
• trunc
• update-cache
• update-codes-cache
• with-delete-status
• with-load-status

Public variables and functions:

• ->H2Db
• bad-probemap-query
• bin-offset
• block-size
• collect-fields
• column-len-query
• concat-field-bins
• create-db
• create-xenadb
• dataset-id-by-name
• delete-dataset
• delete-if-probemap-invalid
• delete-rows-by-field-cmd
• do-command-while-updates
• eval-sql
• fetch-genes
• fetch-indexed
• fetch-position
• fetch-rows
• field-genes
• field-genes-by-row
• field-position
• field-position-by-row
• h2-log-level
• has-codes?
• has-genes?
• has-index?
• has-position?
• int-set-bins
• map->H2Db
• max-warnings
• mem-min
• migrate-probemap
• score-decode
• score-encode
• score-encode-orig
• set-of-all
• set-of-all-cache
• set-tmp-dir!
• trunc
• update-cache
• update-codes-cache
• with-delete-status
• with-load-status

Public variables and functions:

• ->AHashable
• ahashable
• get-array

Public variables and functions:

• ->AHashable
• ahashable
• get-array

Public variables and functions:

• ->hu-tucker
• ->huffman
• byte-freqs
• coded-dictionary
• combine-freqs
• decode-range
• decode-to
• dictionary
• display-dictionary
• encode-bytes
• Encoder
• ht-dict-len
• ht-tree
• huff-dict-len
• huff-tree
• insert-code
• make-hu-tucker
• make-huffman
• map->hu-tucker
• map->huffman
• map-to-arr
• update-freqs
• write-int

Public variables and functions:

• ->hu-tucker
• ->huffman
• byte-freqs
• coded-dictionary
• combine-freqs
• decode-range
• decode-to
• dictionary
• display-dictionary
• encode-bytes
• Encoder
• ht-dict-len
• ht-tree
• huff-dict-len
• huff-tree
• insert-code
• make-hu-tucker
• make-huffman
• map->hu-tucker
• map->huffman
• map-to-arr
• update-freqs
• write-int

Public variables and functions:

Public variables and functions:

Public variables and functions:

• *formatter*
• read-str
• write-array
• write-str

Public variables and functions:

• *formatter*
• read-str
• write-array
• write-str

Public variables and functions:

• consume-vec
• lazy-mapcat

Public variables and functions:

• consume-vec
• lazy-mapcat

Public variables and functions:

• dispatch
• loader
• loader-agent

Public variables and functions:

• dispatch
• loader
• loader-agent

Public variables and functions:

• multi-reader
• with-multi

Public variables and functions:

• multi-reader
• with-multi

Public variables and functions:

• pack

Public variables and functions:

• pack

Public variables and functions:

• buff-to-string
• common-prefix
• compress-bin
• compress-htfc
• compress-pfc
• compute-inner
• diff-rec
• diff-sorted
• find-htfc
• get-bytes
• htfc-offsets
• index-of
• lookup-htfc
• merge-htfc
• merge-sorted
• merge-sorted-v
• next-str
• partition-all-v
• serialize-htfc
• uncompress-bin
• uncompress-dict
• uncompress-inner
• vbyte-decode-buff
• vbyte-encode
• vbyte0
• vbyte1
• vbyte2
• vbyte3

Public variables and functions:

• buff-to-string
• common-prefix
• compress-bin
• compress-htfc
• compress-pfc
• compute-inner
• diff-rec
• diff-sorted
• find-htfc
• get-bytes
• htfc-offsets
• index-of
• lookup-htfc
• merge-htfc
• merge-sorted
• merge-sorted-v
• next-str
• partition-all-v
• serialize-htfc
• uncompress-bin
• uncompress-dict
• uncompress-inner
• vbyte-decode-buff
• vbyte-encode
• vbyte0
• vbyte1
• vbyte2
• vbyte3

Public variables and functions:

• expression

Public variables and functions:

• expression

Public variables and functions:

• functions
• Matrix
• meannan-impl

Public variables and functions:

• functions
• Matrix
• meannan-impl

Public variables and functions:

• detector
• reader

Public variables and functions:

• detector
• reader

Public variables and functions:

• wrap-reload
• wrap-stacktrace-web
• wrap-trace

Public variables and functions:

• wrap-reload
• wrap-stacktrace-web
• wrap-trace

Public variables and functions:

• wrap-reload
• wrap-stacktrace-web
• wrap-trace

Public variables and functions:

• all-in-set
• any-in-set
• evaluate
• exp-indexed?
• in-set
• limit-result
• op-and
• op-in-cmp
• op-or
• project
• restrict
• sort-exps

Public variables and functions:

• all-in-set
• any-in-set
• evaluate
• exp-indexed?
• in-set
• limit-result
• op-and
• op-in-cmp
• op-or
• project
• restrict
• sort-exps

Public variables and functions:

• ->PStatement
• cached-statement
• map->PStatement
• sql-stmt
• sql-stmt-result

Public variables and functions:

• ->PStatement
• cached-statement
• map->PStatement
• sql-stmt
• sql-stmt-result

Public variables and functions:

• ->StringVec
• arr->str
• str->arr
• stringvec

Public variables and functions:

• ->StringVec
• arr->str
• str->arr
• stringvec

Public variables and functions:

• expression
• functions
• loader-request
• routes
• upload-files

Public variables and functions:

• expression
• functions
• loader-request
• routes
• upload-files

Public variables and functions:

• category-field
• column-map-file
• columns-from-header
• detect-cgdata
• detect-tsv
• drop-hash
• drop-indexes
• dup-indexes
• enforce-mutation-fields
• field-spec
• find-position-field
• find-position-fields
• fix-json
• fix-vec
• gene-pred-file
• genomic-segment-columns
• genomic-segment-file
• guess-column-type
• intern-coll
• intern-csv-coll
• map-file
• map-invert
• matrix-data-parse
• matrix-file
• mutation-columns
• mutation-file
• mutation-required-columns
• normalize-chrom
• normalize-column-name
• pick-header
• probemap-columns
• probemap-file
• range-from
• references
• strcpy
• tsv-rows

Public variables and functions:

• category-field
• column-map-file
• columns-from-header
• detect-cgdata
• detect-tsv
• drop-hash
• drop-indexes
• dup-indexes
• enforce-mutation-fields
• field-spec
• find-position-field
• find-position-fields
• fix-json
• fix-vec
• gene-pred-file
• genomic-segment-columns
• genomic-segment-file
• guess-column-type
• intern-coll
• intern-csv-coll
• map-file
• map-invert
• matrix-data-parse
• matrix-file
• mutation-columns
• mutation-file
• mutation-required-columns
• normalize-chrom
• normalize-column-name
• pick-header
• probemap-columns
• probemap-file
• range-from
• references
• strcpy
• tsv-rows

Public variables and functions:

• -main

Public variables and functions:

• -main