{"action":"closed","issue":{"url":"https://api.github.com/repos/BlueBrain/Brion/issues/4","labels_url":"https://api.github.com/repos/BlueBrain/Brion/issues/4/labels{/name}","comments_url":"https://api.github.com/repos/BlueBrain/Brion/issues/4/comments","events_url":"https://api.github.com/repos/BlueBrain/Brion/issues/4/events","html_url":"https://github.com/BlueBrain/Brion/issues/4","id":92636895,"number":4,"title":"morphologyConverter SIGABRT when converting from SWC to HDF5","user":{"login":"juanchopanza","id":675013,"avatar_url":"https://avatars.githubusercontent.com/u/675013?v=3","gravatar_id":"","url":"https://api.github.com/users/juanchopanza","html_url":"https://github.com/juanchopanza","followers_url":"https://api.github.com/users/juanchopanza/followers","following_url":"https://api.github.com/users/juanchopanza/following{/other_user}","gists_url":"https://api.github.com/users/juanchopanza/gists{/gist_id}","starred_url":"https://api.github.com/users/juanchopanza/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/juanchopanza/subscriptions","organizations_url":"https://api.github.com/users/juanchopanza/orgs","repos_url":"https://api.github.com/users/juanchopanza/repos","events_url":"https://api.github.com/users/juanchopanza/events{/privacy}","received_events_url":"https://api.github.com/users/juanchopanza/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/BlueBrain/Brion/labels/bug","name":"bug","color":"fc2929"}],"state":"closed","locked":false,"assignee":{"login":"eile","id":354947,"avatar_url":"https://avatars.githubusercontent.com/u/354947?v=3","gravatar_id":"","url":"https://api.github.com/users/eile","html_url":"https://github.com/eile","followers_url":"https://api.github.com/users/eile/followers","following_url":"https://api.github.com/users/eile/following{/other_user}","gists_url":"https://api.github.com/users/eile/gists{/gist_id}","starred_url":"https://api.github.com/users/eile/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/eile/subscriptions","organizations_url":"https://api.github.com/users/eile/orgs","repos_url":"https://api.github.com/users/eile/repos","events_url":"https://api.github.com/users/eile/events{/privacy}","received_events_url":"https://api.github.com/users/eile/received_events","type":"User","site_admin":false},"milestone":null,"comments":1,"created_at":"2015-07-02T13:26:37Z","updated_at":"2015-07-03T09:07:28Z","closed_at":"2015-07-03T09:07:28Z","body":"Running `morphologyConverter` on CSCS viz node results in a SIGABRT. The steps to reproduce (requires access to CSCS):\r\n\r\n    module load latest\r\n    morphologyConverter -i Neuron.swc -o Neuron.h5\r\n\r\nThis produces the backtrace\r\n\r\n```\r\nmorphologyConverter:17645 terminated with signal 6 at PC=3472c32625 SP=7fff58be8e28.  Backtrace:\r\n/lib64/libc.so.6(gsignal+0x35)[0x3472c32625]\r\n/lib64/libc.so.6(abort+0x175)[0x3472c33e05]\r\n/gpfs/bbp.cscs.ch//apps/viz/tools/gcc/gcc-4.8.2/install/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x155)[0x7fed9ea5ca95]\r\n/gpfs/bbp.cscs.ch//apps/viz/tools/gcc/gcc-4.8.2/install/lib64/libstdc++.so.6(+0x5dc06)[0x7fed9ea5ac06]\r\n/gpfs/bbp.cscs.ch//apps/viz/tools/gcc/gcc-4.8.2/install/lib64/libstdc++.so.6(+0x5dc33)[0x7fed9ea5ac33]\r\n/gpfs/bbp.cscs.ch//apps/viz/tools/gcc/gcc-4.8.2/install/lib64/libstdc++.so.6(+0x5de5e)[0x7fed9ea5ae5e]\r\n/gpfs/bbp.cscs.ch/apps/viz/bbp/dev/Release/2015-07-02_09-53-48_latest/lib/libBrion.so.5(_ZN5brion6plugin13MorphologySWC12_readSamplesERNS1_10RawSWCInfoE+0x11f5)[0x7feda0733af5]\r\n/gpfs/bbp.cscs.ch/apps/viz/bbp/dev/Release/2015-07-02_09-53-48_latest/lib/libBrion.so.5(_ZN5brion6plugin13MorphologySWCC1ERKNS_18MorphologyInitDataE+0x4bb)[0x7feda0734a7b]\r\n/gpfs/bbp.cscs.ch/apps/viz/bbp/dev/Release/2015-07-02_09-53-48_latest/lib/libBrion.so.5(_ZN5boost6detail8function21function_obj_invoker1INS_3_bi6bind_tINS3_11unspecifiedENS_7factoryIPN5brion6plugin13MorphologySWCEMNS0_11none_helperEiLNS_25\r\nfactory_alloc_propagationE0EEENS3_5list1INS_3argILi1EEEEEEEPNS7_16MorphologyPluginERKNS7_18MorphologyInitDataEE6invokeERNS1_15function_bufferESO_+0x21)[0x7feda0735cf1]\r\n/gpfs/bbp.cscs.ch/apps/viz/bbp/dev/Release/2015-07-02_09-53-48_latest/lib/libBrion.so.5(_ZN8lunchbox13PluginFactoryIN5brion16MorphologyPluginENS1_18MorphologyInitDataEE6createERKS3_+0x5d8)[0x7feda070cab8]\r\n/gpfs/bbp.cscs.ch/apps/viz/bbp/dev/Release/2015-07-02_09-53-48_latest/lib/libBrion.so.5(_ZN5brion10MorphologyC1ERKSs+0x60)[0x7feda070c100]\r\nmorphologyConverter(main+0x594)[0x40e494]\r\n/lib64/libc.so.6(__libc_start_main+0xfd)[0x3472c1ed5d]\r\nmorphologyConverter[0x408771]\r\n```\r\n\r\nThe input `Neuron.swc` is [available on bbpcode.epfl.ch](https://bbpcode.epfl.ch/code/gitweb?p=algorithms/hbp-neurom.git;a=blob_plain;f=test_data/swc/Neuron.swc;hb=HEAD) (access restricted).\r\n\r\n\r\n"}}