graph-tool 2.13 Macports build throws dyld exception at gt.purge_vertices()
Tiego -- Is this an issue with 2.13, or the Macports build process? It fails consistently across several boxes with the underlying error "dyld: Symbol not found". Minimum code: # This code creates a little graph and filters out the largest connected component 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) comp, hist = gt.label_components(g) comp_sub = g.new_vertex_property('bool') k_sub = hist.argmax() for v in g.vertices(): if comp[v] == k_sub: comp_sub[v] = True g.set_vertex_filter(comp_sub) g.purge_vertices() Exception: dyld: lazy symbol binding failed: Symbol not found: __ZN10graph_tool6detail15action_dispatchIN5boost6lambda14lambda_functorINS3_19lambda_functor_baseINS3_12other_actionINS3_17assignment_actionEEENS2_6tuples5tupleINS4_INS3_8identityIRmEEEENS4_INS5_INS3_6actionILi2ENS3_15function_actionILi2EmEEEENSA_IKNS_15HardNumVerticesEKNS4_INS3_11placeholderILi1EEEEENS9_9null_typeESP_SP_SP_SP_SP_SP_SP_EEEEEESP_SP_SP_SP_SP_SP_SP_SP_EEEEEEN4mpl_5bool_ILb0EEEJNS0_15all_graph_viewsEEEC1ERKS10_ Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/libgraph_tool_core.so Expected in: flat namespace dyld: Symbol not found: __ZN10graph_tool6detail15action_dispatchIN5boost6lambda14lambda_functorINS3_19lambda_functor_baseINS3_12other_actionINS3_17assignment_actionEEENS2_6tuples5tupleINS4_INS3_8identityIRmEEEENS4_INS5_INS3_6actionILi2ENS3_15function_actionILi2EmEEEENSA_IKNS_15HardNumVerticesEKNS4_INS3_11placeholderILi1EEEEENS9_9null_typeESP_SP_SP_SP_SP_SP_SP_EEEEEESP_SP_SP_SP_SP_SP_SP_SP_EEEEEEN4mpl_5bool_ILb0EEEJNS0_15all_graph_viewsEEEC1ERKS10_ Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/libgraph_tool_core.so Expected in: flat namespace -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
On 09.03.2016 22:21, stsmith@ll.mit.edu wrote:
Tiego -- Is this an issue with 2.13, or the Macports build process? It fails consistently across several boxes with the underlying error "dyld: Symbol not found".
This is a known bug with some MacOS compilers. You should install a recent clang (e.g. version 3.7.1) from macports, and use that instead of the standard system compiler. See here for more details: https://git.skewed.de/count0/graph-tool/issues/266 Best, Tiago -- Tiago de Paula Peixoto <tiago@skewed.de>
Tiago Peixoto wrote
Tiago -- Thanks, that did the trick with python 2.7. Weird problem. The successful commands are: sudo port uninstall py-graph-tool py27-graph-tool sudo port clean --dist py-graph-tool py27-graph-tool sudo port install py-graph-tool py27-graph-tool configure.compiler=macports-clang-3.7 -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
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Tiago de Paula Peixoto