GSEA error --Specified path is a Directory (expecting a File)

Question

[ahara7]

Hi. I am a beginner for bioscience.

I am trying Enrichment analysis for my microarray data with GSEA.

I managed to generate GCT file, and download a CHIP file for the data. These files were loaded in the software without any problem, but the analysis would not run with following error massage.

I think I specify required files but not directories... I am not sure what I should do to solve this error. Thanks in advance for great help.

---- Full Error Message ----
Specified path is a Directory (expecting a File): /Users/MyUsername/Dropbox

---- Stack Trace ----

# of exceptions: 1

------Specified path is a Directory (expecting a File): /Users/MyUsername/Dropbox------
java.io.IOException: Specified path is a Directory (expecting a File): /Users/MyUsername/Dropbox
    at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.createInputStream(ParserFactory.java:1053)
    at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.read(ParserFactory.java:799)
    at org.gsea_msigdb.gsea/edu.mit.broad.genome.parsers.ParserFactory.read(ParserFactory.java:787)
    at org.gsea_msigdb.gsea/xtools.api.param.PobParam.getPob(PobParam.java:79)
    at org.gsea_msigdb.gsea/xtools.api.param.DatasetReqdParam.getDataset(DatasetReqdParam.java:29)
    at org.gsea_msigdb.gsea/xtools.api.param.DatasetReqdParam.getDataset(DatasetReqdParam.java:33)
    at org.gsea_msigdb.gsea/xtools.gsea.Gsea.execute(Gsea.java:143)
    at org.gsea_msigdb.gsea/edu.mit.broad.xbench.tui.TaskManager$ToolRunnable.run(TaskManager.java:435)
    at java.base/java.lang.Thread.run(Unknown Source)

My setting is following

 Expression dataset: (loaded GCT file)
 Gene sets database: c5.all.v7.2.symbols.gmt
 Number of permutations: 1000
 Phenotype labels: ClassA_vs_ClassB.cls (created on-the-fly)
 Collaple / Remap to gene symbols: Collapse
 Permutation type: gene_set
 Chip platform: /(full path)/Clariom_S_Mouse.r1.chip 

GSEA v4.1.0 for Mac
MacOS 10.15.6

[GenoMax]

It may help if you provide the command line you are using. Obfuscate file names if you need to. Error clearly is saying that you are not specifying a file name.

[ahara7]

Thank you for your comment. As I'm using GUI version, I cannot show you the command.

Finally, I reboot the app and try the same process, resulting in going well. I am not sure what was wrong...

Sorry to bother you. I really appreciate it.