Opened 6 years ago
Last modified 4 years ago
#57786 assigned defect
py37-graph-tool graph_draw throws segmentation fault without XQuartz running
Reported by: | ssllmit (ss) | Owned by: | |
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Priority: | Normal | Milestone: | |
Component: | ports | Version: | 2.5.4 |
Keywords: | Cc: | mamoll (Mark Moll) | |
Port: | py-graph-tool |
Description
py37-graph-tool
's method graph_draw
throws a segmentation fault without an X11 server running (also an issue with previous versions).
This may be an upstream issue, but throwing a segmentation fault is almost always a bad idea.
First, make sure X11 isn't running. Everything works fine when it is.
ps -ef | grep XQuartz | grep -v grep
import graph_tool.all as gt g = gt.Graph() v0 = g.add_vertex(); v1 = g.add_vertex(); v2 = g.add_vertex(); e01 = g.add_edge(v0,v1); e12 = g.add_edge(v1,v2); e20 = g.add_edge(v2,v0); gt.graph_draw(g) Segmentation fault: 11
Versions:
$ port installed py37-graph-tool depof:py37-graph-tool The following ports are currently installed: boost @1.66.0_3+no_single+no_static+python37 (active) cairomm @1.12.2_0+x11 (active) cgal @4.13_0 (active) clang-7.0 @7.0.0_1+analyzer+libstdcxx (active) expat @2.2.6_1 (active) graphviz @2.40.1_1+pangocairo+x11 (active) libomp @7.0.0_0+universal (active) pkgconfig @0.29.2_0 (active) py37-cairo @1.18.0_0 (active) py37-gobject3 @3.28.3_0 (active) py37-graph-tool @2.27_2+clang70+openmp (active) py37-numpy @1.15.4_0+gfortran (active) py37-scipy @1.1.0_1+gfortran (active) python37 @3.7.1_0 (active) sparsehash @2.0.3_1 (active)
Change History (4)
comment:1 Changed 6 years ago by mf2k (Frank Schima)
Owner: | set to count0 |
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Port: | py-graph-tool added; py37-graph-tool removed |
Status: | new → assigned |
comment:2 Changed 6 years ago by mamoll (Mark Moll)
comment:3 Changed 6 years ago by mamoll (Mark Moll)
Some more detailed info when just importing Cairo:
env DYLD_LIBRARY_PATH=/opt/local/lib python Python 3.7.1 (default, Oct 23 2018, 09:39:32) [Clang 10.0.0 (clang-1000.11.45.2)] on darwin Type "help", "copyright", "credits" or "license" for more information. >>> import cairo Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/cairo/__init__.py", line 1, in <module> from ._cairo import * # noqa: F401,F403 ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/cairo/_cairo.cpython-37m-darwin.so, 2): Symbol not found: _iconv Referenced from: /usr/lib/libmecab.1.0.0.dylib Expected in: /opt/local/lib/libiconv.2.dylib in /usr/lib/libmecab.1.0.0.dylib
That same command works fine without the env DYLD_LIBRARY_PATH=/opt/local/lib
bit.
comment:4 Changed 4 years ago by mf2k (Frank Schima)
Owner: | count0 deleted |
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This is very odd. If I don't have X11 running and run the python code above, it works, but I do get this error:
(and the X11 server is automatically launched in the background.) If I launch python like so:
then things crash right after the import statement:
I have
py37-graph-tool @2.27_2+clang70+gtk3+openmp
installed.