Open davidecarlson opened 6 years ago
I am facing the same problem. Were you able to resolve it? FYI: it works on test data.
I too have this same issue. Would love to hear if you were able to resolve it!
I never resolved it, unfortunately.
I set the the x argument to 30 and then it worked.
Here is the command I used: $script -i $bamfile -s $script_dir -o $out_dir -r $te_file -t $te_annotation -x 30 -m 30 -f 285 -c 8
I too am having the same problem. I get no input returned. Has this been solved??
Thank you
Hi Jiali, I'm having some trouble getting TEMP to work properly. Most of the output files that are produced are empty (or empty except for the headers). No error messages are produced. Everything seems to work fine when I run TEMP on the test data, so I don't think it's an issue with the installation or my environment. In addition, I suspect based on results from other methods that my fastq data should have non-reference TE insertions in them.
Here are the commands I'm running:
Here are the contents of the output directory:
Do you have any idea what could be causing this or what I might try to fix it?
Thanks for any suggestions! Dave