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ComparativeGenomicsToolkit / cactus

Official home of genome aligner based upon notion of Cactus graphs
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ModuleNotFoundError: No module named 'toil' #1119

Closed alexvasilikop closed 1 year ago

alexvasilikop commented 1 year ago

Hello, I downloaded and installed cactus v. 2.6.5 and also the dependencies on a local workstation machine with a Linux ("Ubuntu 18.10 Cosmic Cuttlefish") distribution as described here: https://github.com/ComparativeGenomicsToolkit/cactus/blob/v2.6.5/BIN-INSTALL.md.

After trying to run the test for cactus within the created virtualenvironment:

cactus ./jobstore ./examples/evolverMammals.txt ./evolverMammals.hal --realTimeLogging

I get the following error:

Traceback (most recent call last):
  File "/home/lege/anaconda3/bin/cactus", line 5, in <module>
    from cactus.progressive.cactus_progressive import main
  File "/home/lege/anaconda3/lib/python3.10/site-packages/cactus/progressive/cactus_progressive.py", line 20, in <module>
    from toil.lib.bioio import getTempFile
ModuleNotFoundError: No module named 'toil'

However when I run:

toil --version

I get:

5.12.0

Any ideas what the problem is? Thanks in advance Alex

alexvasilikop commented 1 year ago

Not sure what the problem was but it is resolved.