Re: [galaxy-dev] Tophat2 Issues

2012-09-18 Thread Jeremy Goecks
The bug manifests itself when running the tool with use Defaults selected results in the following error: cp: cannot stat `/data/galaxy-dev/galaxy-dev/database/job_working_directory/000/281/tophat_out/fusions.out': No such file or directory It seems that somehow, the filter on the

[galaxy-dev] Tophat2 Issues

2012-09-14 Thread Lance Parsons
I've run into one bug and a one other smaller issue with the Tophat2 wrapper. The bug manifests itself when running the tool with use Defaults selected results in the following error: cp: cannot stat `/data/galaxy-dev/galaxy-dev/database/job_working_directory/000/281/tophat_out/fusions.out':