no results in output folder

[wang-tan]

Hi， I run the taiji with my ATAC-seq and RNA-seq data, there's no error and the stdout indicates it's OK, however, there is nothing in the output folder except a genome.index file.

Is there something wrong?

Best, Tan

[wang-tan]

when I run taiji again，it only output this and nothing in output folder too.

[kaizhang]

This is usually because your input file contains zero data, probably because of a formatting error.

[wang-tan]

Here is my input file，I really can't find anything wrong. Could you take a look for me? Thanks very much!

[AlisaOmel]

I am also getting this issue. I ran 2 different .bed files with individual input and config files.

1) The first one finished successfully, with no output data, and a log file that matches the first comment here.

2) Then I changed my config file and input file to a completely different set of data, and I received a log file with just: ^[[0m^[[32m^[[1m[INFO][02-21 11:32] ^[[0m^[[0m^[[32mProgram finishes successfully^[[0m

It is possible my formatting could be wrong. Could you provide an example of what my .bed file should look like/ what format I should use. I attached a copy of my .bed file here.

[kaizhang]

@AlisaOmel The issue may relate to editing the input.tsv file under Windows system which adds some special characters at the end of each line. The solution is to add a random column after the last column OR use the yaml format to write inputs.

You need to delete the sciflow.db if you want to start a fresh run.

[AlisaOmel]

Hi @kaizhang, thanks for your quick reply. This issue was fixed by using a yaml file format and adding the format flag NarrowPeaks under the path to the .bed file. Again thanks so much for your help.