AttributeError: module 'qtl.io' has no attribute 'sort_bed'

[isaartiga]

Hi,

I am encountering an issue when running the eqtl_prepare_expression.py script. Specifically, I get an AttributeError stating that module 'qtl.io' has no attribute 'sort_bed'. I'm running it using the docker image.
Here is the error:

Loading expression data
Normalizing data (tmm)
  * 80 genes in input tables
  * 22 genes remain after thresholding
Traceback (most recent call last):
  File "src/eqtl_prepare_expression.py", line 112, in <module>
     qtl.io.sort_bed(bed_df, inplace=True)
AttributeError: module 'qtl.io' has no attribute 'sort_bed'

Thanks in advance.

[C-YONG]

You solved that problem? I had the same problem

[francois-a]

Please make sure to use the lastest pyqtl version, which has this function: https://github.com/broadinstitute/pyqtl/blob/master/qtl/io.py#L17