Opened 8 years ago

Closed 8 years ago

#759 closed defect (fixed)

matchmaker broken (couldn't find alignment module)

Reported by: Elaine Meng Owned by: Conrad Huang
Priority: major Milestone:
Component: Sequence Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description

I don't think it matters what data, but here's an example:

open 2mnr
open 4enl
matchmaker #2 to #1

Traceback (most recent call last):
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/cmd_line/tool.py", line 178, in execute
cmd.run(cmd_text)
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py", line 2411, in run
_used_aliases=used_aliases, log=log))
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py", line 2896, in call
return self.cmd.run(text, _used_aliases=_used_aliases, log=log)
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py", line 2390, in run
result = ci.function(session, kw_args)
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/match_maker/match.py", line 624, in cmd_match
gap_open_other=ogap, compute_ss=compute_ss, verbose=verbose)
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/match_maker/match.py", line 307, in match
matrix, alg, gap_open, gap_extend, dssp_cache,
align_kw)
File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/match_maker/match.py", line 60, in align
from chimerax.seqalign.align_algs import NeedlemanWunsch
ModuleNotFoundError: No module named 'chimerax.seqalign.align_algs'

ModuleNotFoundError: No module named 'chimerax.seqalign.align_algs'

File "/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/match_maker/match.py", line 60, in align
from chimerax.seqalign.align_algs import NeedlemanWunsch

Change History (2)

comment:1 by pett, 8 years ago

Owner: changed from pett to Conrad Huang

Seems like a hiccup with bundle installation.

comment:2 by Elaine Meng, 8 years ago

Resolution: fixed
Status: assignedclosed

Seems to be working now... tested in 2017-07-19 build,

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