Hi! Thank you for developing a useful tool.
After installation, I gave it a try to run yanocomp with the provided test dataset in tests/test_data from the package.
I simply run test.sh file but I got a diff: test_data/hek293t_wt_vs_mettl13.bed: No such file or directory error. I thought the bed format was the output file, which is supposed to be generated automatically after running. Is it something I need to make before running?
yanocomp) [euijin.kwon-umw@c6525c12 tests]$ sh test.sh
2023-04-03 17:29:03,084 INFO No GTF provided, records will be grouped by transcript
2023-04-03 17:29:16,665 INFO No GTF provided, records will be grouped by transcript
2023-04-03 17:29:42,592 WARNING Default min depth set to 6 to match window size 3
2023-04-03 17:29:42,596 INFO Running gmmtest in 3-comp GMM (uniform outliers) mode with 1 control datasets and 1 treatment datasets
2023-04-03 17:29:42,598 INFO 8 genes to be processed on 1 workers
2023-04-03 17:29:58,040 INFO Complete. Tested 208 positions
2023-04-03 17:29:58,057 INFO 45 positions significant at 5% level
2023-04-03 17:29:58,156 INFO Writing output to /home/euijin.kwon-umw/Euijin/yanocomp/tests/treat_v_cntrl.bed
diff: test_data/hek293t_wt_vs_mettl13.bed: No such file or directory
fail
Also, What is diffmod prep function in the instruction? I am wondering if it is yanocomp prep.
I am looking forward to hearing from you.
Thank you.
Hi! Thank you for developing a useful tool. After installation, I gave it a try to run yanocomp with the provided test dataset in tests/test_data from the package. I simply run test.sh file but I got a
diff: test_data/hek293t_wt_vs_mettl13.bed: No such file or directoryerror. I thought the bed format was the output file, which is supposed to be generated automatically after running. Is it something I need to make before running?Also, What is diffmod prep function in the instruction? I am wondering if it is
yanocomp prep.I am looking forward to hearing from you. Thank you.