Question: JBrowse error - No module named 'Bio'
0
gravatar for vebaev
20 months ago by
vebaev130
vebaev130 wrote:

I installed jbrowse tool with no problem, but on run it gives:

Fatal error: Exit code 1 ()
Traceback (most recent call last):
  File "/shed_tools/toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/69c5e9c0add0/jbrowse/jbrowse.py", line 16, in <module>
    from Bio.Data import CodonTable
ModuleNotFoundError: No module named 'Bio'
jbrowse • 946 views
ADD COMMENTlink modified 20 months ago by Eric Rasche20 • written 20 months ago by vebaev130
0
gravatar for Eric Rasche
20 months ago by
Eric Rasche20
Texas A&M University
Eric Rasche20 wrote:

Hi @manekineko,

Would you mind trying to re-install the tool / fix the tool's dependencies? It is missing BioPython which should have been installed as part of the package installation.

This package seems to have incredible issues installing properly, I've never understood why. My apologies for the trouble.

ADD COMMENTlink written 20 months ago by Eric Rasche20

Hi Eric,

I will reinstall it, but just checked, the Jbrowse is "green"-marked "installed" which should mean all dependencies should be ok? also: biopython 1.66 Conda , inside Jbrowse have a green check?

ADD REPLYlink written 20 months ago by vebaev130

I have reinstalled BioPython 1.66, again was installed with green status, but got the same error?

ADD REPLYlink written 19 months ago by vebaev130

Did you ever resolve this issue?

ADD REPLYlink written 12 months ago by danielfortin86110
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