DIAMOND CLI Config

Provides an API for constructing CLI calls to the DIAMOND sequence aligner tool using type safe parameters, allowing for syntactic validation of a call before it is executed or submitted to an external worker.

Usage

build.gradle.kts

implementation("org.veupathdb.lib:diamond-cli:0.5.18")

Examples

val bp = Diamond.blastP {
  databaseFile = Path("path/to/some/db.dmnd")
  query        = listOf(Path("path/to/my/query.fasta"))
}

License

Copyright 2024 VEuPathDB

Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at

http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.