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View Code? Open in Web Editor NEWA graphical editor for the reconstruction, annotation and testing of genome-scale models
License: GNU General Public License v3.0
A graphical editor for the reconstruction, annotation and testing of genome-scale models
License: GNU General Public License v3.0
treeView.header().restoreState() not working
PyQt was pinned to 5.9.2 as version 5.10 causes crash of travis
After addition from database
RuntimeWarning: invalid value encountered in double_scalars
Overriding ,_reactions in Gene subclassing
python -m GEMEditor.run --file=../Models/iJB1325_HP.json
objc[1476]: Class FIFinderSyncExtensionHost is implemented in both /System/Library/PrivateFrameworks/FinderKit.framework/Versions/A/FinderKit (0x7fffa923e3f0) and /System/Library/PrivateFrameworks/FileProvider.framework/OverrideBundles/FinderSyncCollaborationFileProviderOverride.bundle/Contents/MacOS/FinderSyncCollaborationFileProviderOverride (0x1325dc8f50). One of the two will be used. Which one is undefined.
Scaling...
A: min|aij| = 1.000e+00 max|aij| = 1.000e+00 ratio = 1.000e+00
Problem data seem to be well scaled
Traceback (most recent call last):
File "/Users/zuck016/Projects/AgileBio/A.niger/GEMEditor/GEMEditor/main/model/tabs.py", line 859, in run_analysis
self.analyses[selected_analysis](selected_solver)
File "/Users/zuck016/Projects/AgileBio/A.niger/GEMEditor/GEMEditor/main/model/tabs.py", line 872, in run_parsimonous
solution = pfba(self.model)
File "/Users/zuck016/.pyenv/versions/anaconda3-2020.11/envs/idp_new/lib/python3.6/site-packages/cobra/flux_analysis/parsimonious.py", line 99, in pfba
fraction_of_optimum=fraction_of_optimum, reactions=reactions)
File "/Users/zuck016/.pyenv/versions/anaconda3-2020.11/envs/idp_new/lib/python3.6/site-packages/cobra/flux_analysis/parsimonious.py", line 164, in _pfba_optlang
fraction_of_optimum=fraction_of_optimum)
File "/Users/zuck016/.pyenv/versions/anaconda3-2020.11/envs/idp_new/lib/python3.6/site-packages/cobra/flux_analysis/parsimonious.py", line 133, in add_pfba
for variable in variables]), direction='min', sloppy=True,
File "/Users/zuck016/.pyenv/versions/anaconda3-2020.11/envs/idp_new/lib/python3.6/site-packages/cobra/flux_analysis/parsimonious.py", line 133, in <listcomp>
for variable in variables]), direction='min', sloppy=True,
AttributeError: module 'sympy' has no attribute 'singleton'
Abort trap: 6
bash-3.2$
[5356:5260:1122/110045:ERROR:gl_context_wgl.cc(66)] Failed to create GL context.
Probably connected private method
No solution returned for FVA
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