Failed data load

[Good Life]

Hi,

I am currently trying to run GSEA on my data, but I've encountered an issue during the data upload process. I followed the guidelines for generating my tab-delimited .txt file into GSEA, but an error occurred during the upload. Please see below for the error message.

Is there a way for me to send you my files privately so that you may take a look and help me identify the possible cause of the error?

I appreciate your time and assistance with this!

Best regards,

Jinoh

There were errors: ERROR(S) #:1

Parsing trouble

java.lang.NumberFormatException: For input string: "descriptio ...

 

---- Stack Trace ----

# of exceptions: 1

------For input string: "description"------

java.lang.NumberFormatException: For input string: "description"

                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.AbstractParser.parseStringToFloat(AbstractParser.java:250)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.AbstractParser.parseFieldsIntoFloatArray(AbstractParser.java:361)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.AbstractParser.parseTextMatrixToDataset(AbstractParser.java:277)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.TxtDatasetParser.parse(TxtDatasetParser.java:108)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.readDatasetTXT(ParserFactory.java:201)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.read(ParserFactory.java:759)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.read(ParserFactory.java:736)

                at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserWorker.doInBackground(ParserWorker.java:53)

                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]

Hi Jinoh,

For the column with the header "description", could you try using Description or DESCRIPTION instead?
It's likely that the parser is not recognizing the all lowercase formatting.
If that still doesn't correct the error, you can definitely send your file to gsea...@broadinstitute.org to be confidentially reviewed
-Anthony

Anthony S. Castanza, PhD
Curator, Molecular Signatures Database
Mesirov Lab, Department of Medicine

University of California, San Diego

[Good Life]

Great!

I just sent the files to the email address.

Thank you so much!

Jinoh