I am new here at usegalaxy.org and am currently failing to connect my sequences.
I have overlapping sequences, so I am using fastq-join. Unfortunately, with all my sequences and all settings (Maximum percentage difference between matching segments and Minimum length of matching segements) I get an error message like this:
/corral4/main/jobs/053/530/53530919/tool_script.sh: line 9: fastq-join: not found
The tool does seem to have a configuration problem at the UseGalaxy.org public server. We are looking into this right now. Thanks for reporting the problem! More feedback soon.
This tool has been repaired and is ready to use again. Please give it a try and let us know if you have more problems. Sharing your history with the new error would help us to fix any corner cases that may remain a problem.