Error in Loading my data

[Luís Eduardo Gonçalves]

Hello,

I am having issues when I try to load my data. I've tried saving as gct and txt, but it did not work. The following error appears:

<Error Details>

---- Full Error Message ----

There were errors: ERROR(S) #:1

Parsing trouble

java.lang.NumberFormatException: ...

---- Stack Trace ----

# of exceptions: 1

------For input string: "302,2048"------

java.lang.NumberFormatException: For input string: "302,2048"

at java.base/jdk.internal.math.FloatingDecimal.readJavaFormatString(Unknown Source)

at java.base/jdk.internal.math.FloatingDecimal.parseFloat(Unknown Source)

at java.base/java.lang.Float.parseFloat(Unknown Source)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.GctParser._parseHasDesc(GctParser.java:215)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.GctParser._parse(GctParser.java:167)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.GctParser.parse(GctParser.java:117)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.readDatasetGct(ParserFactory.java:159)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.readDatasetGct(ParserFactory.java:129)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.read(ParserFactory.java:746)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.read(ParserFactory.java:725)

at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserWorker.doInBackground(ParserWorker.java:51)

at java.desktop/javax.swing.SwingWorker$1.call(Unknown Source)

at java.base/java.util.concurrent.FutureTask.run(Unknown Source)

at java.desktop/javax.swing.SwingWorker.run(Unknown Source)

at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)

at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)

at java.base/java.lang.Thread.run(Unknown Source)

[Anthony Castanza]

Hello,

 

The error message indicates that there are unexpected comma characters in your dataset. The most common cause of this issue is using a language encoding that saves numbers using a comma instead of a period as a decimal separator.

If this doesn’t address the error message you’re experiencing, sending a screenshot of the content of the input file would assist in further debugging.

 

-Anthony

 

Anthony S. Castanza, PhD

Curator, Molecular Signatures Database

Mesirov Lab, Department of Medicine

University of California, San Diego

http://gsea-msigdb.org/

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[Luís Eduardo Gonçalves]

It worked! thank you so much. Apparently there were some commas throughout the data.