Opened 22 months ago
Closed 22 months ago
#10457 closed defect (limitation)
tgz chimeraX download does not install on fedora core 37
Reported by: | Owned by: | Greg Couch | |
---|---|---|---|
Priority: | normal | Milestone: | |
Component: | Platform | Version: | |
Keywords: | Cc: | Tom Goddard | |
Blocked By: | Blocking: | ||
Notify when closed: | Platform: | all | |
Project: | ChimeraX |
Description
hello, Unpacking the tgz file and running chimeraX from bin/ produces these results, mostly looking for libffi.so however, I have all libffi libraries installed that exist for my repo RPMs 33 kB/s | 2.0 kB 00:00 Package libffi-3.4.4-1.fc37.x86_64 is already installed. Package libffi-devel-3.4.4-1.fc37.x86_64 is already installed. [bennion1@emer bin]$ ls amber20 fonttools kernprof nib-tck2trk pybabel rst2html.py sphinx-build blockdiag grako lsm2bin nib-trk2tck __pycache__ rst2latex.py sphinx-quickstart ChimeraX html2text nc3tonc4 normalizer pydicom rst2man.py structcomp cpuinfo imagecodecs nc4tonc3 parmed pyftmerge rst2odt_prepstyles.py tiff2fsspec cygdb ipython ncinfo parrec2nii pyftsubset rst2odt.py tiffcomment cython ipython3 nib-conform pip pygmentize rst2pseudoxml.py tifffile cythonize jupyter nib-convert pip3 pylupdate6 rst2s5.py ttx distro jupyter-kernel nib-dicomfs pip3.11 pyproject-build rst2xetex.py wheel docutils jupyter-kernelspec nib-diff pkginfo python3.11 rst2xml.py wheel-filename f2py jupyter-migrate nib-ls pt2to3 pyuic6 rstpep2html.py xparmed f2py3 jupyter-qtconsole nib-nifti-dx ptdump qtpy sff f2py3.11 jupyter-run nib-roi ptrepack rst2html4.py sphinx-apidoc ffmpeg jupyter-troubleshoot nib-stats pttree rst2html5.py sphinx-autogen [bennion1@emer bin]$ ./ChimeraX NOTE: available bundle cache has not been initialized yet WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/seqalign/__init__.py", line 25, in <module> from .cmd import (get_alignment_sequence, SeqArg, AlignmentArg, AlignSeqPairArg, SeqRegionArg, File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/seqalign/cmd.py", line 318, in <module> from chimerax.atomic.seq_support import IdentityDenominator, percent_identity File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 386, in init_manager api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Alignments's module: libffi.so.6: cannot open shared object file: No such file or directory WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/build_structure/__init__.py", line 14, in <module> from .mod import modify_atom, cn_peptide_bond File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/build_structure/mod.py", line 14, in <module> from chimerax.atomic import Element File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 375, in initialize api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-BuildStructure's module: libffi.so.6: cannot open shared object file: No such file or directory WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/markers/__init__.py", line 78, in <module> from .markers import MarkerSet, create_link, selected_markers, selected_links File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/markers/markers.py", line 25, in <module> from chimerax.atomic import Structure File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 375, in initialize api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Markers's module: libffi.so.6: cannot open shared object file: No such file or directory WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/chem_group/__init__.py", line 25, in <module> from .chem_group import find_group File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/chem_group/chem_group.py", line 29, in <module> from chimerax.atomic.idatm import type_info, tetrahedral, planar, linear, single File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 375, in initialize api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-ChemGroup's module: libffi.so.6: cannot open shared object file: No such file or directory WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dist_monitor/__init__.py", line 26, in <module> from .cmd import SimpleMeasurable, ComplexMeasurable File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dist_monitor/cmd.py", line 38, in <module> from chimerax.atomic import Atom File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 375, in initialize api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-DistMonitor's module: libffi.so.6: cannot open shared object file: No such file or directory WARNING: QCoreApplication::postEvent: Unexpected null receiver NOTE: Unable to import OpenGL.platform.glx.GLXPlatform: libffi.so.6: cannot open shared object file: No such file or directory Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 376, in initialize api._api_caller.initialize(api, session, self) File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/__init__.py", line 1294, in initialize return cls._get_func(api, "initialize")(session, bi) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dicom/__init__.py", line 31, in initialize from .ui.segmentation_mouse_mode import ( File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dicom/ui/segmentation_mouse_mode.py", line 20, in <module> from .segmentations import SegmentationTool File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dicom/ui/segmentations.py", line 55, in <module> from ..ui.orthoplanes import Axis File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dicom/ui/orthoplanes.py", line 51, in <module> from ..graphics import ( File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dicom/graphics/__init__.py", line 1, in <module> from .view import OrthoplaneView File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/dicom/graphics/view.py", line 6, in <module> from chimerax.graphics import gllist File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/graphics/gllist.py", line 71, in <module> wrap_opengl_routines(globals()) File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/graphics/gllist.py", line 22, in wrap_opengl_routines from OpenGL import GL File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/OpenGL/GL/__init__.py", line 3, in <module> from OpenGL import error as _error File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/OpenGL/error.py", line 12, in <module> from OpenGL import platform, _configflags File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/OpenGL/platform/__init__.py", line 56, in <module> _load() File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/OpenGL/platform/__init__.py", line 50, in _load plugin = plugin_class() ^^^^^^^^^^^^^^ TypeError: 'NoneType' object is not callable WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/swap_res/__init__.py", line 25, in <module> from .swap_res import swap_aa, get_rotamers File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/swap_res/swap_res.py", line 28, in <module> from chimerax.atomic import AtomicStructure File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 375, in initialize api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-SwapRes's module: libffi.so.6: cannot open shared object file: No such file or directory WARNING: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 501, in get_module m = importlib.import_module(self.package_name) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/importlib/__init__.py", line 126, in import_module return _bootstrap._gcd_import(name[level:], package, level) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "<frozen importlib._bootstrap>", line 1206, in _gcd_import File "<frozen importlib._bootstrap>", line 1178, in _find_and_load File "<frozen importlib._bootstrap>", line 1149, in _find_and_load_unlocked File "<frozen importlib._bootstrap>", line 690, in _load_unlocked File "<frozen importlib._bootstrap_external>", line 940, in exec_module File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/__init__.py", line 33, in <module> from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 28, in <module> from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 30, in <module> import ctypes File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/ctypes/__init__.py", line 8, in <module> from _ctypes import Union, Structure, Array ImportError: libffi.so.6: cannot open shared object file: No such file or directory During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 375, in initialize api = self._get_api(session.logger) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 520, in _get_api m = self.get_module() ^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 503, in get_module raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e))) chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Atomic's module: libffi.so.6: cannot open shared object file: No such file or directory ERROR: Bundle 'ChimeraX-Alignments' custom initialization failed ERROR: Bundle 'ChimeraX-BuildStructure' custom initialization failed ERROR: Bundle 'ChimeraX-Markers' custom initialization failed ERROR: Bundle 'ChimeraX-ChemGroup' custom initialization failed ERROR: Bundle 'ChimeraX-DistMonitor' custom initialization failed ERROR: Bundle 'ChimeraX-Dicom' custom initialization failed ERROR: Bundle 'ChimeraX-SwapRes' custom initialization failed ERROR: Bundle 'ChimeraX-Atomic' custom initialization failed NOTE: Unable to import OpenGL.platform.glx.GLXPlatform: libffi.so.6: cannot open shared object file: No such file or directory Traceback (most recent call last): File "<frozen runpy>", line 198, in _run_module_as_main File "<frozen runpy>", line 88, in _run_code File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/core/__main__.py", line 1069, in <module> exit_code = init(sys.argv) ^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/core/__main__.py", line 722, in init sess.ui.build() File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/ui/gui.py", line 191, in build self.main_window = mw = MainWindow(self, self.session) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/ui/gui.py", line 445, in __init__ self.graphics_window = g = GraphicsWindow(self._stack, ui, stereo) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/ui/graphics.py", line 36, in __init__ oc = OpenGLContext(self, ui.primaryScreen(), use_stereo = stereo) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/graphics/opengl.py", line 60, in __init__ _initialize_pyopengl() # Set global GL module. ^^^^^^^^^^^^^^^^^^^^^^ File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/chimerax/graphics/opengl.py", line 375, in _initialize_pyopengl import OpenGL.GL File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/OpenGL/GL/__init__.py", line 3, in <module> from OpenGL import error as _error File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/OpenGL/error.py", line 12, in <module> from OpenGL import platform, _configflags File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/OpenGL/platform/__init__.py", line 56, in <module> _load() File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/OpenGL/platform/__init__.py", line 50, in _load plugin = plugin_class() ^^^^^^^^^^^^^^ TypeError: 'NoneType' object is not callable BUG: TypeError: 'NoneType' object is not callable File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site- packages/OpenGL/platform/__init__.py", line 50, in _load plugin = plugin_class() ^^^^^^^^^^^^^^ _See log for complete Python traceback._ NOTE: Exception ignored in: <function OpenGLContext.__del__ at 0x7f140c464fe0> Traceback (most recent call last): File "/home/bennion1/Downloads/chimerax-1.7/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 85, in __del__ if not self._deleted: ^^^^^^^^^^^^^ AttributeError: 'OpenGLContext' object has no attribute '_deleted' [cid:53a9550c-38ae-4239-9fd1-3365588775ff][cid:54192077-477e-4f79-af47-9ac7ba06d252][cid:2d1f31c5-8fe5-4b09-94f9-7ae2edbded1b]Biosciences and Biotechnology Division|PLS|Lawrence Livermore National Laboratory|925-422-5722 Friendly Email Disclaimer: I'm writing or responding to this email at a time that is convenient for my work schedule. 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Attachments (3)
Change History (5)
by , 22 months ago
Attachment: | Outlook-bdyggrlc.png added |
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comment:1 by , 22 months ago
Cc: | added |
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Component: | Unassigned → Platform |
Owner: | set to |
Platform: | → all |
Project: | → ChimeraX |
Status: | new → assigned |
Reported by Brian Bennion
comment:2 by , 22 months ago
Resolution: | → limitation |
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Status: | assigned → closed |
The .tar.gz is not expected to work on Fedora 37, or really any recent version of Linux. The dependencies are frequently too old or missing.
In your case, you can try the RHEL/CentOS 9 rpm, which is based on Fedora 36. Or use the experimental flatpak version of ChimeraX. The plan is to get rid of the .tar.gz download and for users to use the flatpak instead.
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