Closed nr0cinu closed 7 years ago
Hi Bela,
I think this problem can be resolved by adding this BASH environment variable:
export MPLBACKEND="agg"
Let me know if you are still having trouble.
Best,
Chris
On Dec 5, 2016, at 6:11 AM, Bela Hausmann notifications@github.com wrote:
Hi!
I started using iRep, and when it runs with X forwarding activated, it works great on our servers. However, once there is no X display present, it allways crashes. The calculations are still saved, so its not a big problem. I’m also not sure if this is an iRep or matplotlib bug. We have matplotlib 1.5.2rc2 installed.
Thanks for this great tool! Best, Bela
iRep output:
:0: FutureWarning: IPython widgets are experimental and may change in the future.
parsing mapping files
calculating coverage over sliding windows
calculating coverage slope and index of replication (iRep)
saving results
plotting data
Traceback (most recent call last): File "/apps/iRep-master/iRep-15112016/bin/iRep.py", line 1183, in
thresholds, args['no_gc_correction'], args['t']) File "/apps/iRep-master/iRep-15112016/bin/iRep.py", line 1003, in iRep plot_genomes(genomes, mappings, plot) File "/apps/iRep-master/iRep-15112016/bin/iRep.py", line 200, in plot_genomes r2, kept_windows, title) File "/apps/iRep-master/iRep-15112016/bin/iRep.py", line 156, in plot_coverage_hist fig, ax1 = plt.subplots() File "/usr/lib64/python3.5/site-packages/matplotlib/pyplot.py", line 1177, in subplots fig = figure(fig_kw) File "/usr/lib64/python3.5/site-packages/matplotlib/pyplot.py", line 527, in figure kwargs) File "/usr/lib64/python3.5/site-packages/matplotlib/backends/backend_tkagg.py", line 84, in new_figure_manager return new_figure_manager_given_figure(num, figure) File "/usr/lib64/python3.5/site-packages/matplotlib/backends/backend_tkagg.py", line 92, in new_figure_manager_given_figure window = Tk.Tk() File "/usr/lib64/python3.5/tkinter/init.py", line 1868, in init self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) _tkinter.TclError: couldn't connect to display "localhost:10.0" — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread.
Excellent, that worked! Thanks!
Hi!
I started using iRep, and when it runs with X forwarding activated, it works great on our servers. However, once there is no X display present, it allways crashes. The calculations are still saved, so its not a big problem. I’m also not sure if this is an iRep or matplotlib bug. We have matplotlib 1.5.2rc2 installed.
Thanks for this great tool! Best, Bela
iRep output: