[Biojava-l] ABI trace into a Biojava Sequence?

[Andreas Prlic]

Hi Detlef,

did you try running an initial "mvn install" on your setup? That might be
required for a first download of the jar files into your setup.

Andreas




On Mon, Jun 9, 2014 at 3:20 PM, Detlef Boehm <dboehm at arcor.de> wrote:

> Hi all,
>
> I prefer to do Java Programming in bioinformatics, but I cannot build the
> examples from
> the BioJava:Cookbook:SeqIO:ABItoSequence - Examples from
> http://biojava.org/wiki/BioJava:Cookbook:SeqIO:ABItoSequence.
>
> I used maven in Eclipse IDE for Java Developers  Version: Kepler Service
> Release 2 Build id: 20140224-0627
> with
> M2E - Maven Integration for Eclipse
>
> I tried both examples with Biojava 1.8.5 using the pom.xml as follows, but
> both examples gave failure with
> import org.biojava.bio.chromatogram.*;
> using the Chromatogram and  ChromatogramFactory classes
>
> and
> import org.biojava.bio.program.abi.*;
> using the ABITrace class.
>
> both packages and classes are described in the API.
>
> What is going wrong ? Any idea and help.
>
> Many thanks
> Detlef
>
>
> <project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="
> http://www.w3.org/2001/XMLSchema-instance"
>     xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
> http://maven.apache.org/xsd/maven-4.0.0.xsd">
>     <modelVersion>4.0.0</modelVersion>
>     <groupId>IGVScreenShots</groupId>
>     <artifactId>IGVScreenShots</artifactId>
>     <version>0.0.1-SNAPSHOT</version>
>     <build>
>         <sourceDirectory>src</sourceDirectory>
>         <plugins>
>             <plugin>
> <artifactId>maven-compiler-plugin</artifactId>
>                 <version>3.1</version>
>                 <configuration>
>                     <source />
>                     <target />
>                 </configuration>
>             </plugin>
>         </plugins>
>     </build>
>     <repositories>
>         <repository>
>             <id>biojava-maven-repo</id>
>             <name>BioJava repository</name>
> <url>http://www.biojava.org/download/maven/</url>
>         </repository>
>     </repositories>
>     <dependencies>
>
>         <dependency>
>             <groupId>org.biojava</groupId>
>             <artifactId>core</artifactId>
>             <version>1.8.5</version>
>         </dependency>
>     </dependencies>
> </project>
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