io.github.msdk:msdk-io-mzdb

A java library for the development of mass spectrometry-related algorithms.

License	License GNU Lesser General Public License (LGPL) 2.1 Eclipse Public License (EPL) 1.0
GroupId	GroupId io.github.msdk
ArtifactId	ArtifactId msdk-io-mzdb
Last Version	Last Version 0.0.27
Release Date	Release Date Jul 28, 2019
Type	Type jar
Description	Description A java library for the development of mass spectrometry-related algorithms.

Download msdk-io-mzdb

Filename	Size
msdk-io-mzdb-0.0.27.pom
msdk-io-mzdb-0.0.27.jar	236 KB
msdk-io-mzdb-0.0.27-sources.jar	137 KB
msdk-io-mzdb-0.0.27-javadoc.jar	1 MB
Browse

How to add to project

Apache Maven

<!-- https://jarcasting.com/artifacts/io.github.msdk/msdk-io-mzdb/ -->
<dependency>
    <groupId>io.github.msdk</groupId>
    <artifactId>msdk-io-mzdb</artifactId>
    <version>0.0.27</version>
</dependency>

Gradle Groovy

// https://jarcasting.com/artifacts/io.github.msdk/msdk-io-mzdb/
implementation 'io.github.msdk:msdk-io-mzdb:0.0.27'

Gradle Kotlin

// https://jarcasting.com/artifacts/io.github.msdk/msdk-io-mzdb/
implementation ("io.github.msdk:msdk-io-mzdb:0.0.27")

Apache Buildr

'io.github.msdk:msdk-io-mzdb:jar:0.0.27'

Apache Ivy

<dependency org="io.github.msdk" name="msdk-io-mzdb" rev="0.0.27">
  <artifact name="msdk-io-mzdb" type="jar" />
</dependency>

Groovy Grape

@Grapes(
@Grab(group='io.github.msdk', module='msdk-io-mzdb', version='0.0.27')
)

Scala SBT

libraryDependencies += "io.github.msdk" % "msdk-io-mzdb" % "0.0.27"

Leiningen

[io.github.msdk/msdk-io-mzdb "0.0.27"]

Dependencies

compile (34)

Group / Artifact	Type	Version
io.github.msdk : msdk-datamodel	jar	0.0.27
org.scala-lang : scala-library	jar	2.12.8
org.scala-lang : scala-reflect	jar	2.12.8
org.scala-lang.modules : scala-xml_2.12	jar	1.0.5
com.typesafe.scala-logging : scala-logging_2.12	jar	3.9.0
org.slf4j : jcl-over-slf4j	jar	1.7.26
ch.qos.logback : logback-core	jar	1.1.3
ch.qos.logback : logback-classic	jar	1.2.3
org.apache.commons : commons-lang3	jar	3.4
org.apache.commons : commons-math3	jar	3.5
org.hibernate : hibernate-core	jar	5.4.2.Final
org.hibernate : hibernate-c3p0	jar	5.4.2.Final
com.mchange : c3p0	jar	0.9.5.4
joda-time : joda-time	jar	2.8.2
org.joda : joda-convert	jar	1.7
com.fasterxml.jackson.core : jackson-core	jar	2.9.9
com.fasterxml.jackson.core : jackson-databind	jar	2.9.9
com.fasterxml.jackson.module : jackson-module-scala_2.12	jar	2.9.9
org.msgpack : jackson-dataformat-msgpack	jar	0.8.17
org.msgpack : msgpack-core	jar	0.8.17
com.thetransactioncompany : jsonrpc2-base	jar	1.38
org.postgresql : postgresql	jar	9.4-1200-jdbc41
com.h2database : h2	jar	1.4.181
org.xerial : sqlite-jdbc	jar	3.7.2
org.dbunit : dbunit	jar	2.5.1
io.reactivex : rxjava	jar	1.1.8
com.almworks.sqlite4java : sqlite4java	jar	1.0.392
com.almworks.sqlite4java : sqlite4java-win32-x64	dll	1.0.392
com.almworks.sqlite4java : libsqlite4java-linux-amd64	so	1.0.392
xerces : xercesImpl	jar	2.11.0
com.beust : jcommander	jar	1.48
org.slf4j : slf4j-api	jar	1.7.26
com.google.code.findbugs : jsr305	jar	3.0.2
com.google.guava : guava	jar	27.1-jre

test (6)

Group / Artifact	Type	Version
junit : junit	jar	4.12
org.scalatest : scalatest_2.12	jar	3.0.5
org.mockito : mockito-core	jar	2.27.0
org.hamcrest : hamcrest-library	jar	1.3
com.github.stefanbirkner : system-rules	jar	1.16.1
org.slf4j : slf4j-simple	jar	1.7.26

Project Modules

There are no modules declared in this project.

About MSDK

Mass Spectrometry Development Kit (MSDK) is a Java library of algorithms for processing mass spectrometry data. The goals of the library are to provide a flexible data model with Java interfaces for mass-spectrometry related objects (including raw spectra, processed data sets, identification results etc.) and to integrate the existing algorithms that are currently scattered around various Java-based graphical tools.

Java version

MSDK requires Java runtime (JRE) version 8 or newer.

Usage

API

Please see the complete MSDK API.

Maven artifacts

MSDK jars are automatically deployed to Maven Central. In order to use MSDK, simply add the following dependency to your pom.xml:

 <dependency>
    <groupId>io.github.msdk</groupId>
    <artifactId>msdk-all</artifactId>
    <version>0.0.27</version>
 </dependency>

Development

Tutorial

Please read our brief tutorial on how to contribute new code to MSDK.

Code style

We use the Google Java Style Guide (https://github.com/google/styleguide)
You can use the eclipse-java-google-style.xml file to automatically format your code in the Eclipse IDE
Please write JavaDoc comments as full sentences, starting with a capital letter and ending with a period. Brevity is preferred (e.g., "Calculates standard deviation" instead of "This method calculates and returns a standard deviation of given set of numbers").

Logging

MSDK uses the SLF4J library for logging. This library can forward all logging calls to your favorite logging framework (java.util.logging, Apache log4j, or others). Please see SLF4J documentation for details.

Building

See the BUILD.md file

Mass Spectrometry Development Kit (MSDK)

MSDK is a collaborative project developing a Java library of algorithms for mass spectrometry data processing.

Versions

Version
0.0.27 Jul 28, 2019
0.0.26 Jul 28, 2019
0.0.25 Jul 28, 2019
0.0.24 Jul 28, 2019
0.0.23 Jul 27, 2019
0.0.22 Jul 27, 2019
0.0.21 May 5, 2019
0.0.20 May 5, 2019
0.0.19 Nov 30, 2018
0.0.18 Nov 29, 2018
0.0.17 Nov 16, 2018
0.0.16 Sep 19, 2018
0.0.15 Sep 17, 2018
0.0.14 Jul 19, 2018
0.0.13 Jul 3, 2018
0.0.12 Jun 26, 2018