| 1 | [murphy@eva03 install-tl-20220504]$ chimerax-daily
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| 2 | Traceback (most recent call last):
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| 3 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/runpy.py", line 197, in _run_module_as_main
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| 4 | return _run_code(code, main_globals, None,
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| 5 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/runpy.py", line 87, in _run_code
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| 6 | exec(code, run_globals)
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| 7 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/ChimeraX_main.py", line 1018, in <module>
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| 8 | exit_code = init(sys.argv)
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| 9 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/ChimeraX_main.py", line 425, in init
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| 10 | initialize_ssl_cert_dir()
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| 11 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/utils.py", line 72, in initialize_ssl_cert_dir
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| 12 | import ssl
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| 13 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ssl.py", line 98, in <module>
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| 14 | import _ssl # if we can't import it, let the error propagate
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| 15 | ImportError: libssl.so.1.1: cannot open shared object file: No such file or directory
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| 16 | [murphy@eva03 install-tl-20220504]$ sudo dnf whatprovides libssl.so.1.1
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| 17 | [sudo] password for murphy:
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| 18 | Last metadata expiration check: 1:26:25 ago on Thu 05 May 2022 04:18:11 PM CDT.
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| 19 | openssl1.1-1:1.1.1n-1.fc36.i686 : Compatibility version of the OpenSSL library
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| 20 | Repo : fedora
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| 21 | Matched from:
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| 22 | Provide : libssl.so.1.1
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| 23 |
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| 24 | [murphy@eva03 install-tl-20220504]$ sudo dnf install opens
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| 25 | Display all 164 possibilities? (y or n)
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| 26 | [murphy@eva03 install-tl-20220504]$ sudo dnf install openss
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| 27 | openssh-askpass-8.8p1-1.fc36.1.x86_64
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| 28 | openssh-keycat-8.8p1-1.fc36.1.x86_64
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| 29 | openssh-ldap-authkeys-0.1.0~git20200205.aee4c46-5.fc36.noarch
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| 30 | openssl1.1-1:1.1.1n-1.fc36.i686
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| 31 | openssl1.1-1:1.1.1n-1.fc36.x86_64
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| 32 | openssl1.1-devel-1:1.1.1n-1.fc36.i686
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| 33 | openssl1.1-devel-1:1.1.1n-1.fc36.x86_64
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| 34 | openssl-1:3.0.2-4.fc36.x86_64
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| 35 | openssl-devel-1:3.0.2-4.fc36.i686
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| 36 | openssl-devel-1:3.0.2-4.fc36.x86_64
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| 37 | openssl-gost-engine-3.0.0-2.fc36.x86_64
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| 38 | openssl-ibmpkcs11-1.0.2-10.fc36.x86_64
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| 39 | openssl-libs-1:3.0.2-4.fc36.i686
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| 40 | openssl-libs-1:3.0.2-4.fc36.x86_64
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| 41 | openssl-perl-1:3.0.2-4.fc36.x86_64
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| 42 | openssl-pkcs11-0.4.11-8.fc36.i686
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| 43 | [murphy@eva03 install-tl-20220504]$ sudo dnf install openssl1.1-devel
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| 44 | Last metadata expiration check: 1:27:26 ago on Thu 05 May 2022 04:18:11 PM CDT.
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| 45 | Dependencies resolved.
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| 46 | =============================================================================================
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| 47 | Package Architecture Version Repository Size
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| 48 | =============================================================================================
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| 49 | Installing:
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| 50 | openssl1.1-devel x86_64 1:1.1.1n-1.fc36 fedora 2.2 M
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| 51 | Installing dependencies:
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| 52 | openssl1.1 x86_64 1:1.1.1n-1.fc36 fedora 1.5 M
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| 53 |
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| 54 | Transaction Summary
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| 55 | =============================================================================================
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| 56 | Install 2 Packages
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| 57 |
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| 58 | Total download size: 3.7 M
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| 59 | Installed size: 7.2 M
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| 60 | Is this ok [y/N]: y
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| 61 | Downloading Packages:
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| 62 | (1/2): openssl1.1-1.1.1n-1.fc36.x86_64.rpm 1.1 MB/s | 1.5 MB 00:01
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| 63 | (2/2): openssl1.1-devel-1.1.1n-1.fc36.x86_64.rpm 1.5 MB/s | 2.2 MB 00:01
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| 64 | ---------------------------------------------------------------------------------------------
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| 65 | Total 1.8 MB/s | 3.7 MB 00:02
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| 66 | Running transaction check
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| 67 | Transaction check succeeded.
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| 68 | Running transaction test
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| 69 | Transaction test succeeded.
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| 70 | Running transaction
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| 71 | Preparing : 1/1
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| 72 | Installing : openssl1.1-1:1.1.1n-1.fc36.x86_64 1/2
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| 73 | Installing : openssl1.1-devel-1:1.1.1n-1.fc36.x86_64 2/2
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| 74 | Running scriptlet: openssl1.1-devel-1:1.1.1n-1.fc36.x86_64 2/2
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| 75 | Verifying : openssl1.1-1:1.1.1n-1.fc36.x86_64 1/2
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| 76 | Verifying : openssl1.1-devel-1:1.1.1n-1.fc36.x86_64 2/2
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| 77 |
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| 78 | Installed:
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| 79 | openssl1.1-1:1.1.1n-1.fc36.x86_64 openssl1.1-devel-1:1.1.1n-1.fc36.x86_64
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| 80 |
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| 81 | Complete!
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| 82 | [murphy@eva03 install-tl-20220504]$ chimerax-daily
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| 83 | NOTE: available bundle cache has not been initialized yet
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| 84 | WARNING: Traceback (most recent call last):
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| 85 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 490, in get_module
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| 86 | m = importlib.import_module(self.package_name)
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| 87 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/importlib/__init__.py", line 127, in import_module
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| 88 | return _bootstrap._gcd_import(name[level:], package, level)
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| 89 | File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
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| 90 | File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
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| 91 | File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
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| 92 | File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
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| 93 | File "<frozen importlib._bootstrap_external>", line 850, in exec_module
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| 94 | File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
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| 95 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/seqalign/__init__.py", line 14, in <module>
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| 96 | from .cmd import get_alignment_sequence, SeqArg, AlignmentArg, AlignSeqPairArg, SeqRegionArg
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| 97 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/seqalign/cmd.py", line 294, in <module>
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| 98 | from chimerax.atomic.seq_support import IdentityDenominator, percent_identity
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| 99 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/__init__.py", line 17, in <module>
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| 100 | from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \
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| 101 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 17, in <module>
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| 102 | from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t
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| 103 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 19, in <module>
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| 104 | import ctypes
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| 105 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ctypes/__init__.py", line 8, in <module>
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| 106 | from _ctypes import Union, Structure, Array
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| 107 | ImportError: libffi.so.6: cannot open shared object file: No such file or directory
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| 108 |
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| 109 | During handling of the above exception, another exception occurred:
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| 110 |
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| 111 | Traceback (most recent call last):
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| 112 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 375, in init_manager
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| 113 | api = self._get_api(session.logger)
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| 114 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 509, in _get_api
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| 115 | m = self.get_module()
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| 116 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 492, in get_module
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| 117 | raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e)))
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| 118 | chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Alignments's module: libffi.so.6: cannot open shared object file: No such file or directory
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| 119 |
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| 120 | WARNING: Traceback (most recent call last):
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| 121 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 490, in get_module
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| 122 | m = importlib.import_module(self.package_name)
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| 123 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/importlib/__init__.py", line 127, in import_module
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| 124 | return _bootstrap._gcd_import(name[level:], package, level)
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| 125 | File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
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| 126 | File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
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| 127 | File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
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| 128 | File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
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| 129 | File "<frozen importlib._bootstrap_external>", line 850, in exec_module
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| 130 | File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
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| 131 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/dist_monitor/__init__.py", line 15, in <module>
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| 132 | from .cmd import SimpleMeasurable, ComplexMeasurable
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| 133 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/dist_monitor/cmd.py", line 27, in <module>
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| 134 | from chimerax.atomic import Atom
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| 135 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/__init__.py", line 17, in <module>
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| 136 | from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \
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| 137 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 17, in <module>
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| 138 | from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t
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| 139 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 19, in <module>
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| 140 | import ctypes
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| 141 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ctypes/__init__.py", line 8, in <module>
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| 142 | from _ctypes import Union, Structure, Array
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| 143 | ImportError: libffi.so.6: cannot open shared object file: No such file or directory
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| 144 |
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| 145 | During handling of the above exception, another exception occurred:
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| 146 |
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| 147 | Traceback (most recent call last):
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| 148 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 364, in initialize
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| 149 | api = self._get_api(session.logger)
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| 150 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 509, in _get_api
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| 151 | m = self.get_module()
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| 152 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 492, in get_module
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| 153 | raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e)))
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| 154 | chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-DistMonitor's module: libffi.so.6: cannot open shared object file: No such file or directory
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| 155 |
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| 156 | WARNING: Traceback (most recent call last):
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| 157 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 490, in get_module
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| 158 | m = importlib.import_module(self.package_name)
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| 159 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/importlib/__init__.py", line 127, in import_module
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| 160 | return _bootstrap._gcd_import(name[level:], package, level)
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| 161 | File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
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| 162 | File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
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| 163 | File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
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| 164 | File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
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| 165 | File "<frozen importlib._bootstrap_external>", line 850, in exec_module
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| 166 | File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
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| 167 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/__init__.py", line 17, in <module>
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| 168 | from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \
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| 169 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 17, in <module>
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| 170 | from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t
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| 171 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 19, in <module>
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| 172 | import ctypes
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| 173 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ctypes/__init__.py", line 8, in <module>
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| 174 | from _ctypes import Union, Structure, Array
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| 175 | ImportError: libffi.so.6: cannot open shared object file: No such file or directory
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| 176 |
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| 177 | During handling of the above exception, another exception occurred:
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| 178 |
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| 179 | Traceback (most recent call last):
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| 180 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 364, in initialize
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| 181 | api = self._get_api(session.logger)
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| 182 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 509, in _get_api
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| 183 | m = self.get_module()
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| 184 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 492, in get_module
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| 185 | raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e)))
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| 186 | chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Atomic's module: libffi.so.6: cannot open shared object file: No such file or directory
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| 187 |
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| 188 | WARNING: Traceback (most recent call last):
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| 189 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 490, in get_module
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| 190 | m = importlib.import_module(self.package_name)
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| 191 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/importlib/__init__.py", line 127, in import_module
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| 192 | return _bootstrap._gcd_import(name[level:], package, level)
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| 193 | File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
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| 194 | File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
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| 195 | File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
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| 196 | File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
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| 197 | File "<frozen importlib._bootstrap_external>", line 850, in exec_module
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| 198 | File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
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| 199 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/markers/__init__.py", line 67, in <module>
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| 200 | from .markers import MarkerSet, create_link, selected_markers, selected_links
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| 201 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/markers/markers.py", line 14, in <module>
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| 202 | from chimerax.atomic import Structure
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| 203 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/__init__.py", line 17, in <module>
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| 204 | from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \
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| 205 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 17, in <module>
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| 206 | from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t
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| 207 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 19, in <module>
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| 208 | import ctypes
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| 209 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ctypes/__init__.py", line 8, in <module>
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| 210 | from _ctypes import Union, Structure, Array
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| 211 | ImportError: libffi.so.6: cannot open shared object file: No such file or directory
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| 212 |
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| 213 | During handling of the above exception, another exception occurred:
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| 214 |
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| 215 | Traceback (most recent call last):
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| 216 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 364, in initialize
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| 217 | api = self._get_api(session.logger)
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| 218 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 509, in _get_api
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| 219 | m = self.get_module()
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| 220 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 492, in get_module
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| 221 | raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e)))
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| 222 | chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-Markers's module: libffi.so.6: cannot open shared object file: No such file or directory
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| 223 |
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| 224 | WARNING: Traceback (most recent call last):
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| 225 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 490, in get_module
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| 226 | m = importlib.import_module(self.package_name)
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| 227 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/importlib/__init__.py", line 127, in import_module
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| 228 | return _bootstrap._gcd_import(name[level:], package, level)
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| 229 | File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
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| 230 | File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
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| 231 | File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
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| 232 | File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
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| 233 | File "<frozen importlib._bootstrap_external>", line 850, in exec_module
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| 234 | File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
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| 235 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/chem_group/__init__.py", line 14, in <module>
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| 236 | from .chem_group import find_group
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| 237 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/chem_group/chem_group.py", line 18, in <module>
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| 238 | from chimerax.atomic.idatm import type_info, tetrahedral, planar, linear, single
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| 239 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/__init__.py", line 17, in <module>
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| 240 | from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \
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| 241 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 17, in <module>
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| 242 | from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t
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| 243 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 19, in <module>
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| 244 | import ctypes
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| 245 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ctypes/__init__.py", line 8, in <module>
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| 246 | from _ctypes import Union, Structure, Array
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| 247 | ImportError: libffi.so.6: cannot open shared object file: No such file or directory
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| 248 |
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| 249 | During handling of the above exception, another exception occurred:
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| 250 |
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| 251 | Traceback (most recent call last):
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| 252 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 364, in initialize
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| 253 | api = self._get_api(session.logger)
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| 254 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 509, in _get_api
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| 255 | m = self.get_module()
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| 256 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 492, in get_module
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| 257 | raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e)))
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| 258 | chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-ChemGroup's module: libffi.so.6: cannot open shared object file: No such file or directory
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| 259 |
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| 260 | WARNING: Traceback (most recent call last):
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| 261 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 490, in get_module
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| 262 | m = importlib.import_module(self.package_name)
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| 263 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/importlib/__init__.py", line 127, in import_module
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| 264 | return _bootstrap._gcd_import(name[level:], package, level)
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| 265 | File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
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| 266 | File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
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| 267 | File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
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| 268 | File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
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| 269 | File "<frozen importlib._bootstrap_external>", line 850, in exec_module
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| 270 | File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
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| 271 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/swap_res/__init__.py", line 14, in <module>
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| 272 | from .swap_res import swap_aa, get_rotamers
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| 273 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/swap_res/swap_res.py", line 17, in <module>
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| 274 | from chimerax.atomic import AtomicStructure
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| 275 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/__init__.py", line 17, in <module>
|
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| 276 | from .molobject import Atom, Bond, Chain, CoordSet, Element, Pseudobond, Residue, Sequence, \
|
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| 277 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molobject.py", line 17, in <module>
|
|---|
| 278 | from .molc import CFunctions, string, cptr, pyobject, set_c_pointer, pointer, size_t
|
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| 279 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/atomic/molc.py", line 19, in <module>
|
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| 280 | import ctypes
|
|---|
| 281 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/ctypes/__init__.py", line 8, in <module>
|
|---|
| 282 | from _ctypes import Union, Structure, Array
|
|---|
| 283 | ImportError: libffi.so.6: cannot open shared object file: No such file or directory
|
|---|
| 284 |
|
|---|
| 285 | During handling of the above exception, another exception occurred:
|
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| 286 |
|
|---|
| 287 | Traceback (most recent call last):
|
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| 288 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 364, in initialize
|
|---|
| 289 | api = self._get_api(session.logger)
|
|---|
| 290 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 509, in _get_api
|
|---|
| 291 | m = self.get_module()
|
|---|
| 292 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 492, in get_module
|
|---|
| 293 | raise ToolshedError("Error importing bundle %s's module: %s" % (self.name, str(e)))
|
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| 294 | chimerax.core.toolshed.ToolshedError: Error importing bundle ChimeraX-SwapRes's module: libffi.so.6: cannot open shared object file: No such file or directory
|
|---|
| 295 |
|
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| 296 | ERROR: Bundle 'ChimeraX-Alignments' custom initialization failed
|
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| 297 | ERROR: Bundle 'ChimeraX-DistMonitor' custom initialization failed
|
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| 298 | ERROR: Bundle 'ChimeraX-Atomic' custom initialization failed
|
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| 299 | ERROR: Bundle 'ChimeraX-Markers' custom initialization failed
|
|---|
| 300 | ERROR: Bundle 'ChimeraX-ChemGroup' custom initialization failed
|
|---|
| 301 | ERROR: Bundle 'ChimeraX-SwapRes' custom initialization failed
|
|---|
| 302 | NOTE: Traceback (most recent call last):
|
|---|
| 303 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/runpy.py", line 197, in
|
|---|
| 304 | _run_module_as_main
|
|---|
| 305 | Â Â Â Â return _run_code(code, main_globals, None,
|
|---|
| 306 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/runpy.py", line 87, in
|
|---|
| 307 | _run_code
|
|---|
| 308 | Â Â Â Â exec(code, run_globals)
|
|---|
| 309 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 310 | packages/ChimeraX_main.py", line 1018, in <module>
|
|---|
| 311 | Â Â Â Â exit_code = init(sys.argv)
|
|---|
| 312 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 313 | packages/ChimeraX_main.py", line 688, in init
|
|---|
| 314 | Â Â Â Â sess.ui.build()
|
|---|
| 315 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 316 | packages/chimerax/ui/gui.py", line 237, in build
|
|---|
| 317 | Â Â Â Â self.main_window = mw = MainWindow(self, self.session)
|
|---|
| 318 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 319 | packages/chimerax/ui/gui.py", line 464, in __init__
|
|---|
| 320 | Â Â Â Â self.graphics_window = g = GraphicsWindow(self._stack, ui, stereo)
|
|---|
| 321 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 322 | packages/chimerax/ui/graphics.py", line 33, in __init__
|
|---|
| 323 | Â Â Â Â oc = OpenGLContext(self, ui.primaryScreen(), use_stereo = stereo)
|
|---|
| 324 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 325 | packages/chimerax/graphics/opengl.py", line 49, in __init__
|
|---|
| 326 | Â Â Â Â _initialize_pyopengl() # Set global GL module.
|
|---|
| 327 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 328 | packages/chimerax/graphics/opengl.py", line 319, in _initialize_pyopengl
|
|---|
| 329 | Â Â Â Â import OpenGL.GL
|
|---|
| 330 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 331 | packages/OpenGL/GL/__init__.py", line 3, in <module>
|
|---|
| 332 | Â Â Â Â from OpenGL import error as _error
|
|---|
| 333 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 334 | packages/OpenGL/error.py", line 12, in <module>
|
|---|
| 335 | Â Â Â Â from OpenGL import platform, _configflags
|
|---|
| 336 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 337 | packages/OpenGL/platform/__init__.py", line 36, in <module>
|
|---|
| 338 | Â Â Â Â _load()
|
|---|
| 339 | Â Â File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 340 | packages/OpenGL/platform/__init__.py", line 30, in _load
|
|---|
| 341 | Â Â Â Â plugin = plugin_class()
|
|---|
| 342 | TypeError: 'NoneType' object is not callable
|
|---|
| 343 |
|
|---|
| 344 |
|
|---|
| 345 | BUG: TypeError: 'NoneType' object is not callable
|
|---|
| 346 |
|
|---|
| 347 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-
|
|---|
| 348 | packages/OpenGL/platform/__init__.py", line 30, in _load
|
|---|
| 349 | plugin = plugin_class()
|
|---|
| 350 |
|
|---|
| 351 | _See log for complete Python traceback._
|
|---|
| 352 |
|
|---|
| 353 |
|
|---|
| 354 | Exception ignored in: <function OpenGLContext.__del__ at 0x7f59f6864430>
|
|---|
| 355 | Traceback (most recent call last):
|
|---|
| 356 | File "/usr/libexec/UCSF-ChimeraX-daily/lib/python3.9/site-packages/chimerax/graphics/opengl.py", line 74, in __del__
|
|---|
| 357 | if not self._deleted:
|
|---|
| 358 | AttributeError: 'OpenGLContext' object has no attribute '_deleted'
|
|---|
| 359 | [murphy@eva03 install-tl-20220504]$ sudo dnf whatprovides libffi.so.6
|
|---|
| 360 | Last metadata expiration check: 1:29:02 ago on Thu 05 May 2022 04:18:11 PM CDT.
|
|---|
| 361 | libffi3.1-3.1-32.fc36.i686 : Compatibility package for libffi transition from 3.1 to 3.4.2.
|
|---|
| 362 | Repo : fedora
|
|---|
| 363 | Matched from:
|
|---|
| 364 | Provide : libffi.so.6
|
|---|
| 365 |
|
|---|
| 366 | [murphy@eva03 install-tl-20220504]$ sudo dnf install libffi3.1-3.1-32.fc36
|
|---|
| 367 | Last metadata expiration check: 1:29:47 ago on Thu 05 May 2022 04:18:11 PM CDT.
|
|---|
| 368 | Dependencies resolved.
|
|---|
| 369 | ==============================================================================================================================================================================================
|
|---|
| 370 | Package Architecture Version Repository Size
|
|---|
| 371 | ==============================================================================================================================================================================================
|
|---|
| 372 | Installing:
|
|---|
| 373 | libffi3.1 x86_64 3.1-32.fc36 fedora 31 k
|
|---|
| 374 |
|
|---|
| 375 | Transaction Summary
|
|---|
| 376 | ==============================================================================================================================================================================================
|
|---|
| 377 | Install 1 Package
|
|---|
| 378 |
|
|---|
| 379 | Total download size: 31 k
|
|---|
| 380 | Installed size: 56 k
|
|---|
| 381 | Is this ok [y/N]: y
|
|---|
| 382 | Downloading Packages:
|
|---|
| 383 | libffi3.1-3.1-32.fc36.x86_64.rpm 49 kB/s | 31 kB 00:00
|
|---|
| 384 | ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
|
|---|
| 385 | Total 28 kB/s | 31 kB 00:01
|
|---|
| 386 | Running transaction check
|
|---|
| 387 | Transaction check succeeded.
|
|---|
| 388 | Running transaction test
|
|---|
| 389 | Transaction test succeeded.
|
|---|
| 390 | Running transaction
|
|---|
| 391 | Preparing : 1/1
|
|---|
| 392 | Installing : libffi3.1-3.1-32.fc36.x86_64 1/1
|
|---|
| 393 | Running scriptlet: libffi3.1-3.1-32.fc36.x86_64 1/1
|
|---|
| 394 | Verifying : libffi3.1-3.1-32.fc36.x86_64 1/1
|
|---|
| 395 |
|
|---|
| 396 | Installed:
|
|---|
| 397 | libffi3.1-3.1-32.fc36.x86_64
|
|---|
| 398 |
|
|---|
| 399 | Complete!
|
|---|
| 400 | [murphy@eva03 install-tl-20220504]$ chimerax-daily
|
|---|
| 401 |
|
|---|
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
