## Galaxy GSEA wrapper failure
## Unable to find index.html in [] - listdir=gsea_test.rnk gsea_test.gmt gseatestout jun10 gsea_runner.log
## Command line was java -Xmx6G -cp /home/rlazarus/galaxy-central/tool_dependency_dir/gsea_jar/2.0.12/fubar/rg_gsea_test/8e291f464aa0/jars/gsea2-2.0.12.jar xtools.gsea.GseaPreranked -gmx /home/rlazarus/galaxy-central/tools/rgGSEA/test-data/gseatestout/gsea_test.gmt -gui false -make_sets true -rnd_seed timestamp -norm meandiv -zip_report false -scoring_scheme weighted -rnk /home/rlazarus/galaxy-central/tools/rgGSEA/test-data/gseatestout/gsea_test.rnk -out gseatestout -set_max 500 -set_min 15 -mode Max_probe -collapse false -nperm 10 -rpt_label GSEAtest -plot_top_x 20
## commonly caused by mismatched ID/chip selection
## gsea_runner.log=java.io.FileNotFoundException: File not found: /home/rlazarus/galaxy at edu.mit.broad.genome.parsers.ParserFactory.createInputStream(EIKM) at edu.mit.broad.genome.parsers.ParserFactory.read(EIKM) at xtools.api.param.PobParam.getPob(EIKM) at xtools.api.param.RankedListReqdParam.getRankedList(EIKM) at xtools.gsea.GseaPreranked.createHeader(EIKM) at xtools.gsea.GseaPreranked.execute(EIKM) at xtools.api.AbstractTool.tool_main(EIKM) at xtools.gsea.GseaPreranked.main(EIKM) java.io.FileNotFoundException: File not found: /home/rlazarus/galaxy at edu.mit.broad.genome.parsers.ParserFactory.createInputStream(EIKM) at edu.mit.broad.genome.parsers.ParserFactory.read(EIKM) at xtools.api.param.PobParam.getPob(EIKM) at xtools.api.param.RankedListReqdParam.getRankedList(EIKM) at xtools.gsea.GseaPreranked.execute(EIKM) at xtools.api.AbstractTool.tool_main(EIKM) at xtools.gsea.GseaPreranked.main(EIKM) 7770 [INFO ] Renaming rpt dir on error to: gseatestout/error_GSEAtest.GseaPreranked.1370827107649