package biocaml

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The OCaml Bioinformatics Library

Install

Dune Dependency

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Sources

biocaml-0.11.2.tbz
sha256=fae219e66db06f81f3fd7d9e44717ccf2d6d85701adb12004ab4ae6d3359dd2d
sha512=f6abd60dac2e02777be81ce3b5acdc0db23b3fa06731f5b2d0b32e6ecc9305fe64f407bbd95a3a9488b14d0a7ac7c41c73a7e18c329a8f18febfc8fd50eccbc6

doc/src/biocaml.base/table.ml.html

Source file table.ml

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module Field (* field parsing *) = struct
  type 'a result = ('a, string) Result.t
  type 'a parser = string -> 'a result

  open Result.Monad_infix

  let exn_validate f x msg =
    try Ok (f x)
    with _ -> Error msg

  let int s =
    exn_validate Int.of_string s "Expected integer value"

  let positive_int s =
    int s >>= fun i ->
    if i >= 0 then Ok i
    else Error "Expected positive integer value"

  let bounded_int ~lo ~hi s =
    int s >>= fun i ->
    if i >= lo && i <= hi then Ok i
    else
      let msg = Printf.sprintf "Expected integer value between %d and %d" lo hi in
      Error msg

  let string_with_no_sep s =
    if String.contains s '\n' || String.contains s '\t' then
      let msg = "Expected string without tab or newline character" in
      Error msg
    else
      Ok s

  let parse ?(ctx = "<unknown>") f s =
    match f s with
    | Ok _ as r -> r
    | Error msg ->
      let msg = Printf.sprintf "Field %s is incorrect: %s" ctx msg in
      Error msg

  let parse_all ?ctx f xs =
    parse ?ctx (fun xs -> Result.all (List.map xs ~f)) xs

end
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