zim @0.72.0: Failed to load shared library '@rpath/libatk-1.0.0.dylib' referenced by the typelib: dlopen(@rpath/libatk-1.0.0.dylib, 9): image not found

[vitorn]

The last version of zim (0.72.0_0) did not upgrade correctly. After uninstalling and cleaning the port, I get the message

--->  Building zim
--->  Staging zim into destroot
Error: Failed to destroot zim: command execution failed
Error: See /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_editors_zim/zim/main.log for details.
Error: Follow https://guide.macports.org/#project.tickets to report a bug.
Error: Processing of port zim failed

I'm using macOS Catalina (10.15.3), Xcode 11.3.1 (11C504) on a late 2012 iMac.

The last lines of the log file are

:info:destroot     wrapper = metaclass(name, bases, dict_)
:info:destroot   File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/types.py", line 256, in __init__
:info:destroot     register_interface_info(cls.__info__.get_g_type())
:info:destroot TypeError: must be an interface
:info:destroot Command failed:  cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_editors_zim/zim/work/0.72.0" && /opt/local/Library/Frameworks/Python.framework/Versions/3.7/bin/python3.7 setup.py --no-user-cfg install --prefix=/opt/local/Library/Frameworks/Python.framework/Versions/3.7 --root=/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_editors_zim/zim/work/destroot --install-data=/opt/local 
:info:destroot Exit code: 1
:error:destroot Failed to destroot zim: command execution failed
:debug:destroot Error code: CHILDSTATUS 1862 1
:debug:destroot Backtrace: command execution failed
:debug:destroot     while executing
:debug:destroot "system {*}$notty {*}$nice $fullcmdstring"
:debug:destroot     invoked from within
:debug:destroot "command_exec destroot"
:debug:destroot     (procedure "portdestroot::destroot_main" line 2)
:debug:destroot     invoked from within
:debug:destroot "$procedure $targetname"
:error:destroot See /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_editors_zim/zim/main.log for details.

The log file is attached.

[vitorn]

install log file

[mf2k (Frank Schima)]

In the future, please use WikiFormatting.

[vitorn]

I tried also upgrading Zim on my MacBook Air, and although there was no error message during the upgrade, Zim throws an error (must be an interface) when I try to run from the command line. Note that Zim was not upgraded, the problem arose because of some other port.

Output from port upgrade:

--->  Updating MacPorts base sources using rsync
MacPorts base version 2.6.2 installed,
MacPorts base version 2.6.2 downloaded.
--->  Updating the ports tree
--->  MacPorts base is already the latest version

The ports tree has been updated. To upgrade your installed ports, you should run
  port upgrade outdated

--->  Computing dependencies for pcre
--->  Fetching archive for pcre
--->  Attempting to fetch pcre-8.44_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/pcre
--->  Attempting to fetch pcre-8.44_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/pcre
--->  Installing pcre @8.44_0
--->  Cleaning pcre
--->  Computing dependencies for pcre
--->  Deactivating pcre @8.43_0
--->  Cleaning pcre
--->  Activating pcre @8.44_0
--->  Cleaning pcre
--->  Computing dependencies for xorg-xcb-proto
--->  Fetching archive for xorg-xcb-proto
--->  Attempting to fetch xorg-xcb-proto-1.14_0+python37.darwin_19.noarch.tbz2 from https://packages.macports.org/xorg-xcb-proto
--->  Attempting to fetch xorg-xcb-proto-1.14_0+python37.darwin_19.noarch.tbz2.rmd160 from https://packages.macports.org/xorg-xcb-proto
--->  Installing xorg-xcb-proto @1.14_0+python37
--->  Cleaning xorg-xcb-proto
--->  Computing dependencies for xorg-xcb-proto
--->  Deactivating xorg-xcb-proto @1.13_2+python37
--->  Cleaning xorg-xcb-proto
--->  Activating xorg-xcb-proto @1.14_0+python37
--->  Cleaning xorg-xcb-proto
--->  Computing dependencies for xorg-libxcb
--->  Fetching archive for xorg-libxcb
--->  Attempting to fetch xorg-libxcb-1.14_0+python37.darwin_19.x86_64.tbz2 from https://packages.macports.org/xorg-libxcb
--->  Attempting to fetch xorg-libxcb-1.14_0+python37.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/xorg-libxcb
--->  Installing xorg-libxcb @1.14_0+python37
--->  Cleaning xorg-libxcb
--->  Computing dependencies for xorg-libxcb
--->  Deactivating xorg-libxcb @1.13.1_0+python37
--->  Cleaning xorg-libxcb
--->  Activating xorg-libxcb @1.14_0+python37
--->  Cleaning xorg-libxcb
--->  Computing dependencies for python38
--->  Fetching archive for python38
--->  Attempting to fetch python38-3.8.2_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/python38
--->  Attempting to fetch python38-3.8.2_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/python38
--->  Installing python38 @3.8.2_0
--->  Activating python38 @3.8.2_0
--->  Cleaning python38
--->  Computing dependencies for py38-setuptools
--->  Fetching archive for py38-setuptools
--->  Attempting to fetch py38-setuptools-43.0.0_0.darwin_19.noarch.tbz2 from https://packages.macports.org/py38-setuptools
--->  Attempting to fetch py38-setuptools-43.0.0_0.darwin_19.noarch.tbz2.rmd160 from https://packages.macports.org/py38-setuptools
--->  Installing py38-setuptools @43.0.0_0
--->  Activating py38-setuptools @43.0.0_0
--->  Cleaning py38-setuptools
--->  Computing dependencies for py38-beaker
--->  Fetching archive for py38-beaker
--->  Attempting to fetch py38-beaker-1.11.0_0.darwin_19.noarch.tbz2 from https://packages.macports.org/py38-beaker
--->  Attempting to fetch py38-beaker-1.11.0_0.darwin_19.noarch.tbz2.rmd160 from https://packages.macports.org/py38-beaker
--->  Installing py38-beaker @1.11.0_0
--->  Activating py38-beaker @1.11.0_0
--->  Cleaning py38-beaker
--->  Computing dependencies for py38-markupsafe
--->  Fetching archive for py38-markupsafe
--->  Attempting to fetch py38-markupsafe-1.1.1_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/py38-markupsafe
--->  Attempting to fetch py38-markupsafe-1.1.1_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/py38-markupsafe
--->  Installing py38-markupsafe @1.1.1_0
--->  Activating py38-markupsafe @1.1.1_0
--->  Cleaning py38-markupsafe
--->  Computing dependencies for py38-mako
--->  Fetching archive for py38-mako
--->  Attempting to fetch py38-mako-1.1.2_0.darwin_19.noarch.tbz2 from https://packages.macports.org/py38-mako
--->  Attempting to fetch py38-mako-1.1.2_0.darwin_19.noarch.tbz2.rmd160 from https://packages.macports.org/py38-mako
--->  Installing py38-mako @1.1.2_0
--->  Activating py38-mako @1.1.2_0
--->  Cleaning py38-mako
--->  Computing dependencies for py38-markdown
--->  Fetching archive for py38-markdown
--->  Attempting to fetch py38-markdown-3.2.1_0.darwin_19.noarch.tbz2 from https://packages.macports.org/py38-markdown
--->  Attempting to fetch py38-markdown-3.2.1_0.darwin_19.noarch.tbz2.rmd160 from https://packages.macports.org/py38-markdown
--->  Installing py38-markdown @3.2.1_0
--->  Activating py38-markdown @3.2.1_0
--->  Cleaning py38-markdown
--->  Computing dependencies for gobject-introspection
--->  Fetching archive for gobject-introspection
--->  Attempting to fetch gobject-introspection-1.58.3_3.darwin_19.x86_64.tbz2 from https://packages.macports.org/gobject-introspection
--->  Attempting to fetch gobject-introspection-1.58.3_3.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/gobject-introspection
--->  Installing gobject-introspection @1.58.3_3
--->  Cleaning gobject-introspection
--->  Computing dependencies for gobject-introspection
--->  Deactivating gobject-introspection @1.58.3_2
--->  Cleaning gobject-introspection
--->  Activating gobject-introspection @1.58.3_3
--->  Cleaning gobject-introspection
--->  Computing dependencies for atk
--->  Fetching archive for atk
--->  Attempting to fetch atk-2.34.1_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/atk
--->  Attempting to fetch atk-2.34.1_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/atk
--->  Installing atk @2.34.1_0
--->  Cleaning atk
--->  Computing dependencies for atk
--->  Deactivating atk @2.28.1_0
--->  Cleaning atk
--->  Activating atk @2.34.1_0
--->  Cleaning atk
--->  Computing dependencies for at-spi2-core
--->  Fetching archive for at-spi2-core
--->  Attempting to fetch at-spi2-core-2.34.0_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/at-spi2-core
--->  Attempting to fetch at-spi2-core-2.34.0_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/at-spi2-core
--->  Installing at-spi2-core @2.34.0_0
--->  Cleaning at-spi2-core
--->  Computing dependencies for at-spi2-core
--->  Deactivating at-spi2-core @2.28.0_1
--->  Cleaning at-spi2-core
--->  Activating at-spi2-core @2.34.0_0
--->  Cleaning at-spi2-core
--->  Computing dependencies for at-spi2-atk
--->  Fetching archive for at-spi2-atk
--->  Attempting to fetch at-spi2-atk-2.34.2_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/at-spi2-atk
--->  Attempting to fetch at-spi2-atk-2.34.2_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/at-spi2-atk
--->  Installing at-spi2-atk @2.34.2_0
--->  Cleaning at-spi2-atk
--->  Computing dependencies for at-spi2-atk
--->  Deactivating at-spi2-atk @2.26.2_1
--->  Cleaning at-spi2-atk
--->  Activating at-spi2-atk @2.34.2_0
--->  Cleaning at-spi2-atk
--->  Fetching archive for fftw-3
--->  Attempting to fetch fftw-3-3.3.8_1.darwin_19.x86_64.tbz2 from https://packages.macports.org/fftw-3
--->  Attempting to fetch fftw-3-3.3.8_1.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/fftw-3
--->  Installing fftw-3 @3.3.8_1
--->  Cleaning fftw-3
--->  Deactivating fftw-3 @3.3.8_0
--->  Cleaning fftw-3
--->  Activating fftw-3 @3.3.8_1
--->  Cleaning fftw-3
--->  Computing dependencies for gdk-pixbuf2
--->  Fetching archive for gdk-pixbuf2
--->  Attempting to fetch gdk-pixbuf2-2.40.0_0+x11.darwin_19.x86_64.tbz2 from https://packages.macports.org/gdk-pixbuf2
--->  Attempting to fetch gdk-pixbuf2-2.40.0_0+x11.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/gdk-pixbuf2
--->  Installing gdk-pixbuf2 @2.40.0_0+x11
--->  Cleaning gdk-pixbuf2
--->  Computing dependencies for gdk-pixbuf2
--->  Deactivating gdk-pixbuf2 @2.36.12_0+x11
--->  Cleaning gdk-pixbuf2
--->  Activating gdk-pixbuf2 @2.40.0_0+x11
--->  Cleaning gdk-pixbuf2
--->  Computing dependencies for mesa
--->  Fetching archive for mesa
--->  Attempting to fetch mesa-17.1.6_2+osmesa+python27.darwin_19.x86_64.tbz2 from https://packages.macports.org/mesa
--->  Attempting to fetch mesa-17.1.6_2+osmesa+python27.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/mesa
--->  Installing mesa @17.1.6_2+osmesa+python27
--->  Cleaning mesa
--->  Computing dependencies for mesa
--->  Deactivating mesa @17.1.6_1+osmesa+python27
--->  Cleaning mesa
--->  Activating mesa @17.1.6_2+osmesa+python27
--->  Cleaning mesa
--->  Computing dependencies for gtk3
--->  Fetching archive for gtk3
--->  Attempting to fetch gtk3-3.24.14_1+x11.darwin_19.x86_64.tbz2 from https://packages.macports.org/gtk3
--->  Attempting to fetch gtk3-3.24.14_1+x11.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/gtk3
--->  Installing gtk3 @3.24.14_1+x11
--->  Cleaning gtk3
--->  Computing dependencies for gtk3
--->  Deactivating gtk3 @3.24.14_0+x11
--->  Cleaning gtk3
--->  Activating gtk3 @3.24.14_1+x11
--->  Cleaning gtk3
--->  Computing dependencies for py37-cairo
--->  Fetching archive for py37-cairo
--->  Attempting to fetch py37-cairo-1.19.1_0+quartz+x11.darwin_19.x86_64.tbz2 from https://packages.macports.org/py37-cairo
--->  Attempting to fetch py37-cairo-1.19.1_0+quartz+x11.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/py37-cairo
--->  Installing py37-cairo @1.19.1_0+quartz+x11
--->  Cleaning py37-cairo
--->  Computing dependencies for py37-cairo
--->  Deactivating py37-cairo @1.19.0_0+quartz+x11
--->  Cleaning py37-cairo
--->  Activating py37-cairo @1.19.1_0+quartz+x11
--->  Cleaning py37-cairo
--->  Computing dependencies for py37-mako
--->  Fetching archive for py37-mako
--->  Attempting to fetch py37-mako-1.1.2_0.darwin_19.noarch.tbz2 from https://packages.macports.org/py37-mako
--->  Attempting to fetch py37-mako-1.1.2_0.darwin_19.noarch.tbz2.rmd160 from https://packages.macports.org/py37-mako
--->  Installing py37-mako @1.1.2_0
--->  Cleaning py37-mako
--->  Computing dependencies for py37-mako
--->  Deactivating py37-mako @1.1.1_0
--->  Cleaning py37-mako
--->  Activating py37-mako @1.1.2_0
--->  Cleaning py37-mako
--->  Computing dependencies for py37-tornado
--->  Fetching archive for py37-tornado
--->  Attempting to fetch py37-tornado-6.0.4_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/py37-tornado
--->  Attempting to fetch py37-tornado-6.0.4_0.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/py37-tornado
--->  Installing py37-tornado @6.0.4_0
--->  Cleaning py37-tornado
--->  Computing dependencies for py37-tornado
--->  Deactivating py37-tornado @6.0.3_0
--->  Cleaning py37-tornado
--->  Activating py37-tornado @6.0.4_0
--->  Cleaning py37-tornado
--->  Computing dependencies for py37-matplotlib
--->  Fetching archive for py37-matplotlib
--->  Attempting to fetch py37-matplotlib-3.2.0_0+cairo+webagg.darwin_19.x86_64.tbz2 from https://packages.macports.org/py37-matplotlib
--->  Attempting to fetch py37-matplotlib-3.2.0_0+cairo+webagg.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/py37-matplotlib
--->  Installing py37-matplotlib @3.2.0_0+cairo+webagg
--->  Cleaning py37-matplotlib
--->  Computing dependencies for py37-matplotlib
--->  Deactivating py37-matplotlib @3.1.3_1+cairo+webagg
--->  Cleaning py37-matplotlib
--->  Activating py37-matplotlib @3.2.0_0+cairo+webagg
--->  Cleaning py37-matplotlib
--->  Computing dependencies for py37-sip
--->  Fetching archive for py37-sip
--->  Attempting to fetch py37-sip-4.19.21_1.darwin_19.x86_64.tbz2 from https://packages.macports.org/py37-sip
--->  Attempting to fetch py37-sip-4.19.21_1.darwin_19.x86_64.tbz2.rmd160 from https://packages.macports.org/py37-sip
--->  Installing py37-sip @4.19.21_1
--->  Cleaning py37-sip
--->  Computing dependencies for py37-sip
--->  Deactivating py37-sip @4.19.21_0
--->  Cleaning py37-sip
--->  Activating py37-sip @4.19.21_1
--->  Cleaning py37-sip
--->  Updating database of binaries
--->  Scanning binaries for linking errors
--->  No broken files found.
--->  No broken ports found.
--->  Some of the ports you installed have notes:
  py37-matplotlib has the following notes:
    The default backend is the interactive Mac OS X backend. Different backends
    can be specified using the ~/.matplotlib/matplotlibrc file. More details
    regarding backends can be found in the matplotlib FAQ:

            https://matplotlib.org/tutorials/introductory/usage.html#backends
  py37-sip has the following notes:
    py37-sip is available under a PSF license with one addition:

        4. Licensee may not use SIP to generate Python bindings for any C or
           C++ library for which bindings are already provided by Riverbank.

    GPL-2 or GPL-3 licenses are also available. For details see
    /opt/local/share/doc/py37-sip/LICENSE [-GPL2 -GPL3]
  python38 has the following notes:
    To make this the default Python or Python 3 (i.e., the version run by the
    'python' or 'python3' commands), run one or both of:

        sudo port select --set python python38
        sudo port select --set python3 python38

Output from calling zim from the command line:

% zim

** (zim:3105): WARNING **: 12:33:52.676: Failed to load shared library '@rpath/libatk-1.0.0.dylib' referenced by the typelib: dlopen(@rpath/libatk-1.0.0.dylib, 9): image not found
Traceback (most recent call last):
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/bin/zim", line 40, in <module>
    import zim.main
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/main/__init__.py", line 31, in <module>
    from zim.notebook import Notebook, Path, \
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/notebook/__init__.py", line 38, in <module>
    from .info import NotebookInfo, NotebookInfoList, \
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/notebook/info.py", line 18, in <module>
    from .notebook import NotebookConfig, _resolve_relative_config
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/notebook/notebook.py", line 17, in <module>
    import zim.templates
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/templates/__init__.py", line 61, in <module>
    from zim.templates.functions import build_template_functions
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/templates/functions.py", line 24, in <module>
    from zim.formats.html import html_encode
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/formats/__init__.py", line 79, in <module>
    from zim.plugins import PluginManager
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/plugins/__init__.py", line 45, in <module>
    from zim.actions import hasaction
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/actions.py", line 36, in <module>
    PRIMARY_MODIFIER_MASK = _get_modifier_mask()
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/zim/actions.py", line 31, in _get_modifier_mask
    from gi.repository import Gtk
  File "<frozen importlib._bootstrap>", line 983, in _find_and_load
  File "<frozen importlib._bootstrap>", line 967, in _find_and_load_unlocked
  File "<frozen importlib._bootstrap>", line 668, in _load_unlocked
  File "<frozen importlib._bootstrap>", line 638, in _load_backward_compatible
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/importer.py", line 146, in load_module
    dynamic_module = load_overrides(introspection_module)
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/overrides/__init__.py", line 125, in load_overrides
    override_mod = importlib.import_module(override_package_name)
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/importlib/__init__.py", line 127, in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/overrides/Gtk.py", line 119, in <module>
    class Widget(Gtk.Widget):
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/module.py", line 182, in __getattr__
    interfaces = tuple(interface for interface in get_interfaces_for_object(info)
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/module.py", line 105, in get_interfaces_for_object
    interfaces.append(getattr(module, name))
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/module.py", line 221, in __getattr__
    wrapper = metaclass(name, bases, dict_)
  File "/opt/local/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-packages/gi/types.py", line 256, in __init__
    register_interface_info(cls.__info__.get_g_type())
TypeError: must be an interface

[dbevans (David B. Evans)]

In 9dc5aba19af82ee50aff4a84f9646cb5db8efc97/macports-ports (master):

atk: rebuild after @rpath fix to gobject-introspection

See PR ​https://github.com/macports/macports-ports/pull/6544
Closes #60166