I am trying to create a small teaching environment and I was hesitating to use either IGV or Galaxy and as I am planning to use galaxy for other steps as well it would be a nice combination.
When loading the fasta file obtained from: https://www.ncbi.nlm.nih.gov/nuccore/J01636 it seems to work ok, cannot visualise the sequence and the 3 reading frames but not sure yet if this is possible?
When loading the gff file I get the following error:
Traceback (most recent call last): File "/galaxy-central/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 Close
The original docker file that I use as a spin of from the original docker file is located:
And the error must have been resolved at https://github.com/galaxyproject/tools-devteam/pull/335 but perhaps I am missing some fundamental binaries due to docker?
The next step would be to visualise bam files with 1x, 10x and 100x read coverage to teach them on the coverage impact