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hammerlab / biokepi

Bioinformatics Ketrew Pipelines
Apache License 2.0
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Topiary crash #440

Closed ihodes closed 7 years ago

ihodes commented 7 years ago 
Traceback (most recent call last):
  File "/pgv-results/biokepi-coco-work/toolkit-coco/python-tools/envs/topiary.0.1.2/bin/topiary", line 33, in <module>
    from topiary.commandline_args import (
  File "/pgv-results/biokepi-coco-work/toolkit-coco/python-tools/envs/topiary.0.1.2/lib/python3.6/site-packages/topiary/__init__.py", line 7, in <module>
    from .predict_epitopes import (
  File "/pgv-results/biokepi-coco-work/toolkit-coco/python-tools/envs/topiary.0.1.2/lib/python3.6/site-packages/topiary/predict_epitopes.py", line 18, in <module>
    from mhctools import EpitopeCollection
ImportError: cannot import name 'EpitopeCollection'
smondet commented 7 years ago

Has this been reported upstream?

Or is it specific to our Conda ~hacks~ setup? ;)

ihodes commented 7 years ago

Reported upstream now, also /ccing @armish

julia326 commented 7 years ago

Merged #449 (increasing topiary version) so this no longer fails.