The make_bg module is not found

[Xutainbing]

immunopepper version:2.0.0
Python version:3.8.0
Operating System:Linux

Description

Hi,

The make_bg module is not found in this software. And I also ran the example command line (replace ref with germline to consider mutation information):

immunopepper build
--output-dir tests/test1/current_output_pos
--ann-path tests/test1/data/test1pos.gtf
--ref-path tests/test1/data/test1pos.fa
--splice-path tests/test1/data/posgraph/spladder/genes_graph_conf3.merge_graphs.pickle
--somatic tests/test1/data/test1pos.maf
--germline tests/test1/data/test1pos.vcf
--samples test1pos
--mutation-mode ref
--kmer 4
--disable-concat
--count-path tests/test1/data/posgraph/spladder/genes_graph_conf3.merge_graphs.count.hdf5
--gtex-junction-path tests/test1/data/posgraph/spladder/genes_graph_conf3.test1pos.junction.hdf5

The output was gene_expression_detail.pq, ref_sample_4mer.pq, ref_sample_peptides_meta.pq Sample_IS_SUCCESS, which did not find anything like ref_back_kmer.txt.

Thank you very much,
Andre.

[TheWizier]

Was stuck on this for a while myself trying to get older versions to work and such.
However I found that it seems they are in the middle of a big refactoring process and on their refactor branch the new readme links to this page:
https://immunopepper.readthedocs.io/en/latest/
Hope it helps!