[cctbxbb] cannot compile Phenix
Pavel Afonine
pafonine at lbl.gov
Sat Apr 6 11:39:11 PDT 2019
No luck.. Running
python bootstrap.py --builder=phenix --cciuser=afonine
in an empty directory results in another crash:
Installing OpenSSL...
log file is /Users/pafonine/phenix/base_tmp/OpenSSL_install_log
getting package openssl-1.0.2r.tar.gz...
downloading from
https://gitcdn.link/repo/dials/dependencies/master/ : Traceback (most
recent call last):
File
"modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line
1674, in <module>
installer(args=sys.argv, log=sys.stdout)
File
"modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line
250, in __init__
self.build_dependencies(packages=packages)
File
"modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line
774, in build_dependencies
getattr(self, 'build_%s'%i)()
File
"modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line
1228, in build_openssl
pkg = self.fetch_package(pkg_name=pkg_name, pkg_url=pkg_url)
File
"/Users/pafonine/phenix/modules/cctbx_project/libtbx/auto_build/package_defs.py",
line 240, in __call__
size = self.toolbox.download_to_file(full_url, output_file,
log=self.log)
File
"/Users/pafonine/phenix/modules/cctbx_project/libtbx/auto_build/bootstrap.py",
line 265, in download_to_file
socket = urllib2.urlopen(url_request)
File
"/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/urllib2.py",
line 154, in urlopen
return opener.open(url, data, timeout)
File
"/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/urllib2.py",
line 437, in open
response = meth(req, response)
File
"/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/urllib2.py",
line 550, in http_response
'http', request, response, code, msg, hdrs)
File
"/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/urllib2.py",
line 475, in error
return self._call_chain(*args)
File
"/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/urllib2.py",
line 409, in _call_chain
result = func(*args)
File
"/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/urllib2.py",
line 558, in http_error_default
raise HTTPError(req.get_full_url(), code, msg, hdrs, fp)
urllib2.HTTPError: HTTP Error 500: Internal Server Error
Process failed with return code 1
Pavel
P.S.: Are we really ready for Phenix release?
On 4/6/19 11:16, Pavel Afonine wrote:
> Oh, thanks Rob! Now trying from scratch in an empty folder! Let's see
> how it goes!
> Pavel
>
> On 4/6/19 11:15, R. D. Oeffner wrote:
>> From the messages on the cctbx github mailing list it seems that
>> Dials people have been extricating dxtbx from cctbx_project.
>>
>> Rob
>>
>> -----Original Message----- From: Pavel Afonine
>> Sent: Saturday, April 6, 2019 7:07 PM
>> To: phenixdev
>> Subject: cannot compile Phenix
>>
>> Hi,
>>
>> anyone knows why current Phenix code is broken:
>>
>> python bootstrap.py --builder=phenix --sfuser=afonine --cciuser=afonine
>> update
>> python bootstrap.py --builder=phenix --sfuser=afonine --cciuser=afonine
>> build --nproc=12
>>
>> leads to
>>
>> (...)
>> AttributeError: 'empty' object has no attribute 'dxtbx_include':
>> File "/Users/pafonine/phenix/build/SConstruct", line 31:
>> SConscript("spotfinder/SConscript")
>> File
>> "/Users/pafonine/phenix/modules/scons/engine/SCons/Script/SConscript.py",
>>
>> line 607:
>> return method(*args, **kw)
>> File
>> "/Users/pafonine/phenix/modules/scons/engine/SCons/Script/SConscript.py",
>>
>> line 544:
>> return _SConscript(self.fs, *files, **subst_kw)
>> File
>> "/Users/pafonine/phenix/modules/scons/engine/SCons/Script/SConscript.py",
>>
>> line 253:
>> call_stack[-1].globals)
>> File
>> "/Users/pafonine/phenix/modules/cctbx_project/spotfinder/SConscript",
>> line 22:
>> env_etc.dxtbx_include,
>> usr+sys time: 1.94 seconds
>> wall clock time: 4.51 seconds
>> Process failed with return code 2
>>
>> Any idea for a workaround?
>>
>> Pavel
>>
>>
>>
>> ---
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>>
>
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