adam-examples_2.10

Examples for ADAM: Genomic Data System.

License	Apache License
GroupId	com.github.heuermh.adamexamples
ArtifactId	adam-examples_2.10
Last Version	0.22.0
Release Date	Apr 11, 2017
Type	jar
Description	adam-examples_2.10 Examples for ADAM: Genomic Data System.
Project URL	http://github.com/heuermh/adam-examples
Source Code Management	https://github.com/heuermh/adam-examples.git

Download adam-examples_2.10

Filename	Size
adam-examples_2.10-0.22.0.pom
adam-examples_2.10-0.22.0.jar	49 MB
adam-examples_2.10-0.22.0-sources.jar	3 KB
adam-examples_2.10-0.22.0-javadoc.jar	353 KB

How to add to project

Apache Maven

<!-- https://jarcasting.com/artifacts/com.github.heuermh.adamexamples/adam-examples_2.10/ -->
<dependency>
    <groupId>com.github.heuermh.adamexamples</groupId>
    <artifactId>adam-examples_2.10</artifactId>
    <version>0.22.0</version>
</dependency>

Gradle Groovy

// https://jarcasting.com/artifacts/com.github.heuermh.adamexamples/adam-examples_2.10/
implementation 'com.github.heuermh.adamexamples:adam-examples_2.10:0.22.0'

Gradle Kotlin

// https://jarcasting.com/artifacts/com.github.heuermh.adamexamples/adam-examples_2.10/
implementation ("com.github.heuermh.adamexamples:adam-examples_2.10:0.22.0")

Apache Buildr

'com.github.heuermh.adamexamples:adam-examples_2.10:jar:0.22.0'

Apache Ivy

<dependency org="com.github.heuermh.adamexamples" name="adam-examples_2.10" rev="0.22.0">
  <artifact name="adam-examples_2.10" type="jar" />
</dependency>

Groovy Grape

@Grapes(
@Grab(group='com.github.heuermh.adamexamples', module='adam-examples_2.10', version='0.22.0')
)

Scala SBT

libraryDependencies += "com.github.heuermh.adamexamples" % "adam-examples_2.10" % "0.22.0"

Leiningen

[com.github.heuermh.adamexamples/adam-examples_2.10 "0.22.0"]

Dependencies

compile (3)

Group / Artifact	Type	Version
org.bdgenomics.adam : adam-apis-spark2_2.10	jar	0.22.0
org.bdgenomics.adam : adam-cli-spark2_2.10	jar	0.22.0
org.bdgenomics.adam : adam-core-spark2_2.10	jar	0.22.0

provided (1)

Group / Artifact	Type	Version
org.apache.spark : spark-core_2.10	jar	2.1.0

test (3)

Group / Artifact	Type	Version
junit : junit	jar	4.12
org.bdgenomics.adam : adam-core-spark2_2.10	test-jar	0.22.0
org.scalatest : scalatest_2.10	jar	2.2.6

Project Modules

There are no modules declared in this project.

adam-examples

Examples in Java and Scala for ADAM: Genomic Data System. Apache 2 licensed.

Hacking adam-examples

Install

• JDK 1.8 or later, http://openjdk.java.net
• Scala 2.12.8 or later, http://www.scala-lang.org
• Apache Maven 3.3.1 or later, http://maven.apache.org
• Apache Spark 3.0.0 or later, http://spark.apache.org
• ADAM: Genomic Data System 0.32.0 or later, https://github.com/bigdatagenomics/adam

To build

$ mvn install

Running adam-examples using spark-submit

$ spark-submit \
  --master local[4] \
  --class com.github.heuermh.adam.examples.CountAlignments \
  target/adam-examples_2.12-${ADAM_VERSION}.jar \
  src/test/resources/small.sam

(1,20)


$ spark-submit \
  --master local[4] \
  --class com.github.heuermh.adam.examples.CountAlignmentsPerRead \
  target/adam-examples_2.12-${ADAM_VERSION}.jar \
  src/test/resources/small.sam

(simread:1:237728409:true,1)
(simread:1:195211965:false,1)
(simread:1:163841413:false,1)
(simread:1:231911906:false,1)
(simread:1:26472783:false,1)
(simread:1:165341382:true,1)
(simread:1:240344442:true,1)
(simread:1:50683371:false,1)
(simread:1:240997787:true,1)
(simread:1:14397233:false,1)
(simread:1:207027738:true,1)
(simread:1:20101800:true,1)
(simread:1:5469106:true,1)
(simread:1:186794283:true,1)
(simread:1:189606653:true,1)
(simread:1:101556378:false,1)
(simread:1:37577445:false,1)
(simread:1:89554252:false,1)
(simread:1:153978724:false,1)
(simread:1:169801933:true,1)

Versions

Version
0.22.0 Apr 11, 2017
0.19.0 Feb 26, 2016
0.18.2 Nov 18, 2015
0.18.1 Oct 28, 2015