...and indeed adding it to the "whitelist" (~/galaxy_dev/8090/galaxy/lib/galaxy/tools/_init__.py

solves the problem. I can keep 'preserve_python_environment = legacy_only'

I have made a pull request.

Hans-Rudolf

On 03/27/2017 04:38 PM, Hans-Rudolf Hotz wrote:

Hi All

I am in the process of updating our local galaxy servers to release 17.01.

Using the new release, I get the following error, when I try to display a simple bed file in trackster:

Traceback (most recent call last): File "/***/galaxy_dev/***/galaxy/lib/galaxy/datatypes/converters/interval_to_fli.py", line 20, in from galaxy.datatypes.util.gff_util import convert_gff_coords_to_bed, GFFReaderWrapper, read_unordered_gtf ImportError: No module named galaxy.datatypes.util.gff_util

When change 'preserve_python_environment = legacy_only' to 'preserve_python_environment = always' in "galaxy.ini" it works.

Looks like more tools need to be added to the "whitelist" ?

Regards, Hans-Rudolf