[MacPorts] #48054: py-pbspy: Incorrect permissions on [..]/site-packages/obspy/taup/data

[MacPorts]

#48054: py-pbspy: Incorrect permissions on [..]/site-packages/obspy/taup/data
----------------------------+--------------------------------
 Reporter:  andy.nowacki@…  |      Owner:  macports-tickets@…
     Type:  defect          |     Status:  new
 Priority:  Normal          |  Milestone:
Component:  ports           |    Version:  2.3.3
 Keywords:                  |       Port:  py-obspy
----------------------------+--------------------------------
 ObsPy (as of trunk r137599) has a problem with file permissions.
 Specifically, the code requires read access to the following files and
 directories by a normal user, but they are currently set as readable only
 by root:wheel:

 1.
 ${prefix}/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy-0.10.2-py2.7.egg-info
 {{{
 $ ls -l
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy-0.10.2-py2.7.egg-info/
 total 160
 -rw-------  1 root  wheel   2611 19 May 20:28 PKG-INFO
 -rw-------  1 root  wheel  47494 19 May 20:28 SOURCES.txt
 -rw-------  1 root  wheel      1 19 May 20:28 dependency_links.txt
 -rw-------  1 root  wheel   7552 19 May 20:28 entry_points.txt
 -rw-------  1 root  wheel      1 19 May 20:28 namespace_packages.txt
 -rw-------  1 root  wheel      1 15 May 19:36 not-zip-safe
 -rw-------  1 root  wheel    141 19 May 20:28 requires.txt
 -rw-------  1 root  wheel    166 19 May 20:28 top_level.txt
 }}}
 This directory sometimes itself lacks execution permission for all users,
 but I could not reliably reproduce this when uninstalling and installing
 ObsPy to test.

 2.
 ${prefix}/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/data
 {{{
 $ ls -l
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/data
 total 616
 -rw-------  1 root  wheel      81 15 May 19:31 README.txt
 -rw-------  1 root  wheel  144910 15 May 19:31 ak135.npz
 -rw-------  1 root  wheel    6413 15 May 19:31 ak135.tvel
 -rw-------  1 root  wheel  145978 15 May 19:31 iasp91.npz
 -rw-------  1 root  wheel    5761 15 May 19:31 iasp91.tvel
 }}}

 The code below shows both the errors and my interim fix.

 {{{
 $ cat /tmp/test.py
 from obspy.taup import TauPyModel
 m = TauPyModel()
 $
 $ python2.7 /tmp/test.py && echo success
 Traceback (most recent call last):
   File "/tmp/test.py", line 1, in <module>
     from obspy.taup import TauPyModel
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/__init__.py", line 36, in <module>
     from obspy.core.utcdatetime import UTCDateTime  # NOQA
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/core/__init__.py", line 107, in <module>
     from obspy.core.util.attribdict import AttribDict
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/core/util/__init__.py", line 40, in <module>
     from obspy.core.util.obspy_types import (ComplexWithUncertainties,
 Enum,
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/core/util/obspy_types.py", line 16, in <module>
     with standard_library.hooks():
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/future/standard_library/__init__.py", line 323, in
 __enter__
     install_hooks()
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/future/standard_library/__init__.py", line 528, in
 install_hooks
     install_aliases()
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/future/standard_library/__init__.py", line 482, in
 install_aliases
     import test
   File "/private/tmp/test.py", line 2, in <module>
     m = TauPyModel()
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/tau.py", line 317, in __init__
     self.model = TauModel.from_file(model)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/tau_model.py", line 600, in from_file
     return TauModel.deserialize(filename)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/tau_model.py", line 520, in deserialize
     npz = np.load(filename)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/numpy/lib/npyio.py", line 369, in load
     fid = open(file, "rb")
 IOError: [Errno 13] Permission denied:
 u'/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/data/iasp91.npz'
 $
 $ sudo chmod a+r
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy-0.10.2-py2.7.egg-info/*
 $ python2.7 /tmp/test.py && echo success
 Traceback (most recent call last):
   File "/tmp/test.py", line 1, in <module>
     from obspy.taup import TauPyModel
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/__init__.py", line 36, in <module>
     from obspy.core.utcdatetime import UTCDateTime  # NOQA
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/core/__init__.py", line 107, in <module>
     from obspy.core.util.attribdict import AttribDict
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/core/util/__init__.py", line 40, in <module>
     from obspy.core.util.obspy_types import (ComplexWithUncertainties,
 Enum,
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/core/util/obspy_types.py", line 16, in <module>
     with standard_library.hooks():
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/future/standard_library/__init__.py", line 323, in
 __enter__
     install_hooks()
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/future/standard_library/__init__.py", line 528, in
 install_hooks
     install_aliases()
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/future/standard_library/__init__.py", line 482, in
 install_aliases
     import test
   File "/private/tmp/test.py", line 2, in <module>
     m = TauPyModel()
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/tau.py", line 317, in __init__
     self.model = TauModel.from_file(model)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/tau_model.py", line 600, in from_file
     return TauModel.deserialize(filename)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/tau_model.py", line 520, in deserialize
     npz = np.load(filename)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/numpy/lib/npyio.py", line 369, in load
     fid = open(file, "rb")
 IOError: [Errno 13] Permission denied:
 u'/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/data/iasp91.npz'
 $
 $ sudo chmod a+x
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/data
 $ sudo chmod a+r
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/obspy/taup/data/*
 $ python2.7 /tmp/test.py && echo success
 success
 }}}

 My apologies for not presenting a patch to fix this, but I doubt that just
 adding the chmod commands would be a satisfactory fix.

-- 
Ticket URL: <https://trac.macports.org/ticket/48054>
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