[cctbxbb] Installation failure after package updates

[Billy Poon]

Hi Markus,

I just checked in a fix. I updated the LD_LIBRARY_PATH to include
base/lib64 so that libffi is found. I also updated the path for the
gdk-pixbuf loaders.

Also, pango should not need to rebuild its modules anymore.

Let me know if you have any other issues. Thanks!

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720
Tel: (510) 486-5709
Fax: (510) 486-5909
Web: https://phenix-online.org

On Fri, Jun 10, 2016 at 9:44 AM, Billy Poon <bkpoon at lbl.gov> wrote:

> Hi Markus,
>
> It looks like libffi installed in base/lib64 and the installer is having
> issues with that. I'll get that fixed today. Thanks!
>
> --
> Billy K. Poon
> Research Scientist, Molecular Biophysics and Integrated Bioimaging
> Lawrence Berkeley National Laboratory
> 1 Cyclotron Road, M/S 33R0345
> Berkeley, CA 94720
> Tel: (510) 486-5709
> Fax: (510) 486-5909
> Web: https://phenix-online.org
>
> On Fri, Jun 10, 2016 at 9:17 AM, <markus.gerstel at diamond.ac.uk> wrote:
>
>> Hi Billy,
>>
>>
>>
>> Yes, this is from a completely clean working directory.
>>
>> So far all I could find out is that the installer works as expected when
>> it is being run on the same machine as the build. As part of our build
>> pipeline we also pass the installer on to another machine and that is when
>> the installer crashes. Since all our machines have completely identical
>> operating systems I suspect that absolute paths are involved somehow.
>>
>>
>>
>> -Markus
>>
>>
>>
>>
>>
>> Markus Gerstel MBCS
>>
>> Postdoctoral Research Associate
>>
>> Tel: +44 1235 778698
>>
>>
>>
>> Diamond Light Source Ltd.
>>
>> Diamond House
>>
>> Harwell Science & Innovation Campus
>>
>> Didcot
>>
>> Oxfordshire
>>
>> OX11 0DE
>>
>>
>>
>> *From:* cctbxbb-bounces at phenix-online.org [mailto:
>> cctbxbb-bounces at phenix-online.org] *On Behalf Of *Billy Poon
>> *Sent:* 10 June 2016 17:10
>> *To:* cctbx mailing list
>> *Subject:* Re: [cctbxbb] Installation failure after package updates
>>
>>
>>
>> Hi Markus,
>>
>>
>>
>> The libffi dependency is built with glib (build_glib function in
>> install_base_packages.py). Did you delete your base and base_tmp
>> directories before rebuilding?
>>
>>
>>
>> Also, I copied an email below that I sent to phenixdev about the update
>>
>>
>>
>> Hi all,
>>
>>
>>
>> I just checked in some updated packages and Linux packages specific to
>> the GUI. Here is the list of changes.
>>
>>
>>
>> - zlib 1.2.7 -> 1.2.8
>>
>> - biopython 1.64 -> 1.66
>>
>> - sphinx 1.2.2 -> 1.3.5
>>
>> - ipython 2.1.0 -> 3.2.1
>>
>> - pip 6.0.7 -> 8.0.2
>>
>> - py2app 0.7.3 -> 0.9 (Mac)
>>
>> - libpng 1.2.52 -> 1.5.26
>>
>> - freetype 2.4.2 -> 2.6.3
>>
>> - gettext 0.18.2 -> 0.19.7
>>
>> - glib 2.12.11 -> 2.46.2
>>
>> - expat 1.95.8 -> 2.1.0
>>
>> - fontconfig 2.3.95 -> 2.11.1
>>
>> - render 0.8 -> 0.11.1
>>
>> - xrender 0.8.3 -> 0.9.7
>>
>> - xft 2.1.2 -> 2.3.2
>>
>> - pixman 0.19.2 -> 0.34.0
>>
>> - cairo 1.8.10 -> 1.14.4
>>
>> - pango 1.16.1 -> 1.38.1
>>
>> - atk 1.9.1 -> 2.18.0
>>
>> - libtiff 3.6.1 -> 4.0.6
>>
>> - gtk+ 2.10.11 -> 2.24.29
>>
>>
>>
>> To use the new dependencies in your Linux builds, you will have to delete
>> your base and base_tmp directories before running bootstrap.py.
>>
>>
>>
>> I have tested the build from bootstrap.py on CentOS 5.11 (32-bit and
>> 64-bit), 6.8, 7.2, Ubuntu 12.04.5, 14.04.4, 16.04, and OS X 10.10.5.
>>
>>
>>
>> Let me know if there are any issues. Thanks!
>>
>>
>> --
>>
>> Billy K. Poon
>>
>> Research Scientist, Molecular Biophysics and Integrated Bioimaging
>>
>> Lawrence Berkeley National Laboratory
>>
>> 1 Cyclotron Road, M/S 33R0345
>>
>> Berkeley, CA 94720
>>
>> Tel: (510) 486-5709
>>
>> Fax: (510) 486-5909
>>
>> Web: https://phenix-online.org
>>
>>
>>
>> On Fri, Jun 10, 2016 at 1:25 AM, <markus.gerstel at diamond.ac.uk> wrote:
>>
>> Following the latest package updates we are now observing installer
>> failures.
>>
>> In particular the configure step appears to fail with a missing
>> *libffi.so.6*
>>
>> Any ideas how to rectify this, or if this error can be ignored safely?
>>
>>
>>
>> -Markus
>>
>>
>>
>>
>>
>> Running with --verbose:
>>
>>
>>
>>
>>
>>
>> ==========================================================================
>>
>>                           DIALS Installation
>>
>>
>>
>>                           version: dev20160610
>>
>>                      machine type: intel-linux-2.6-x86_64
>>
>>                        OS version: 2.6.32-573.18.1.el6.x86_64
>>
>>                       destination:
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610
>>
>>                   # of processors: 24
>>
>>
>> =========================================================================
>>
>>
>>
>> Configuring DIALS components...
>>
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build
>>
>> ['/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/bin/python',
>> '/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/configure.py',
>> '--current_working_directory',
>> '/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build',
>> 'dials', 'xia2', 'iota', 'prime']
>>
>> : Python: 2.7.8
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/bin/python"
>>
>> : Compiler: default
>>
>> : Build mode: release
>>
>> : Warning level: 0
>>
>> : Precompiled Headers: False
>>
>> : Static libraries: False
>>
>> : Static exe: False
>>
>> : Scan Boost headers: False
>>
>> : Write full flex_fwd.h files: False
>>
>> : Build Boost.Python extensions: True
>>
>> : Define BOOST_PYTHON_NO_PY_SIGNATURES: False
>>
>> : Define BOOST_PYTHON_BOOL_INT_STRICT: True
>>
>> : Enable OpenMP if possible: False
>>
>> : Boost threads enabled: False
>>
>> : Enable CUDA: False
>>
>> : Use opt_resources if available: False
>>
>> : Use environment flags: False
>>
>> : Enable C++11: False
>>
>> : Force true division: True
>>
>> : command_version_suffix: None
>>
>> : Relocatable paths anchored at:
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build
>>
>> : Top-down list of all modules involved:
>>
>> : prime
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/prime"
>>
>> : iota
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/iota"
>>
>> : xia2
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/xia2"
>>
>> : mmtbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/mmtbx"
>>
>> : dials
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/dials"
>>
>> : xfel
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/xfel"
>>
>> : cma_es
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cma_es"
>>
>> : gltbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/gltbx"
>>
>> : crys3d
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/crys3d"
>>
>> : rstbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/rstbx"
>>
>> : spotfinder
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/spotfinder"
>>
>> : annlib+adaptbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/annlib"
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/annlib_adaptbx"
>>
>> : dxtbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/dxtbx"
>>
>> : iotbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/iotbx"
>>
>> : cbflib+adaptbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cbflib"
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cbflib_adaptbx"
>>
>> : ccp4io+adaptbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/ccp4io"
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/ccp4io_adaptbx"
>>
>> : smtbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/smtbx"
>>
>> : ucif
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/ucif"
>>
>> : cctbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cctbx"
>>
>> : chiltbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/chiltbx"
>>
>> : scitbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/scitbx"
>>
>> : fable
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/fable"
>>
>> : omptbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/omptbx"
>>
>> : boost+adaptbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/boost"
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/boost_adaptbx"
>>
>> : tbxx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/tbxx"
>>
>> : libtbx
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx"
>>
>> : Creating files in build directory:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build"
>>
>> : dispatcher_include_template.sh
>>
>> : dispatcher_head.sh
>>
>> : setpaths.sh
>>
>> : setpaths.csh
>>
>> : setpaths_all.sh
>>
>> : setpaths_all.csh
>>
>> : setpaths_debug.sh
>>
>> : unsetpaths.sh
>>
>> : setpaths_debug.csh
>>
>> : unsetpaths.csh
>>
>> : SConstruct
>>
>> : Makefile
>>
>> : run_tests.csh
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/boost_adaptbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/fable/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/scitbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cctbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/smtbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cbflib_adaptbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/iotbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/dxtbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/spotfinder/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/rstbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/crys3d/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/gltbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/xfel/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/xfel/ui/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/dials/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/mmtbx/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/xia2/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/iota/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/prime/command_line"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/boost_adaptbx/libtbx_refresh.py"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/scitbx/libtbx_refresh.py"
>>
>> : Generating C++ header files in:
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/include/scitbx/array_family"
>>
>> : Generating C++ files in:
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/include/scitbx/array_family/boost_python"
>>
>> : Using fable to convert scitbx/lbfgs.f
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cctbx/libtbx_refresh.py"
>>
>> : Generating C++ files in:
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/cctbx/eltbx"
>>
>> : Generating C++ files in:
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/include/cctbx/boost_python"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/smtbx/libtbx_refresh.py"
>>
>> : Generating C++ files in:
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/include/smtbx/boost_python"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/cbflib_adaptbx/libtbx_refresh.py"
>>
>> : Copying to lib:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cbflib/pycbf/pycbf.py"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/iotbx/libtbx_refresh.py"
>>
>> : Using fable to convert iotbx/pdb/hybrid_36_f.f
>>
>> : Writing: iotbx/pdb/hybrid_36_fem.cpp
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/annlib_adaptbx/libtbx_refresh.py"
>>
>> : Generating C++ files for self-inclusive approximate nearest neighbor
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/crys3d/libtbx_refresh.py"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/gltbx/libtbx_refresh.py"
>>
>> : Generating C++ files in:
>>
>> :
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/gltbx"
>>
>> : Info: Re-using existing font cpp files.
>>
>> : Hint: Remove gltbx/FONTS_UCS_DONE_FLAG_FILE
>>
>> : to force generation of new font files.
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/xfel/libtbx_refresh.py"
>>
>> : Creating cxi_user directory
>>
>> : Creating cxi_user/__init__.py
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/dials/libtbx_refresh.py"
>>
>> : DIALS 1.dev.360-ge6510c8
>>
>> : Identifying autocompletable commands: dials.analyse_background
>> dials.combine_found_spots dials.find_spots dials.index dials.integrate
>> dials.reciprocal_lattice_viewer dials.refine dials.reindex dials.rl_png
>>
>> : Installing autocompletion script into: setpaths_all.sh
>> setpaths_debug.sh setpaths.sh
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/mmtbx/libtbx_refresh.py"
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/xia2/libtbx_refresh.py"
>>
>> : XIA2 0.4.0.381-g9b3a992
>>
>> : Processing:
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build/exe_dev"
>>
>> *: Regenerating module files in
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base*
>>
>> *:
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/etc/pango
>> not present, could not regenerate pango files*
>>
>> *: generating gtk.immodules file*
>>
>> *:
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/bin/gtk-query-immodules-2.0:
>> error while loading shared libraries: libffi.so.6: cannot open shared
>> object file: No such file or directory*
>>
>> : Traceback (most recent call last):
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/configure.py",
>> line 22, in <module>
>>
>> : if not run():
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/configure.py",
>> line 17, in run
>>
>> : libtbx.env_config.cold_start(sys.argv)
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/env_config.py",
>> line 2264, in cold_start
>>
>> : env.refresh()
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/env_config.py",
>> line 1537, in refresh
>>
>> : regenerate_module_files.run(libtbx.env.under_base('.'),
>> only_if_needed=True)
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/auto_build/regenerate_module_files.py",
>> line 154, in run
>>
>> : fix_gtk(base_dir, out)
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/auto_build/regenerate_module_files.py",
>> line 72, in fix_gtk
>>
>> : log=out)
>>
>> : File
>> "/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/auto_build/installer_utils.py",
>> line 81, in call
>>
>> : raise RuntimeError("Call to '%s' failed with exit code %d" % (args, rc))
>>
>> : RuntimeError: Call to
>> '/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/bin/gtk-query-immodules-2.0
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/lib/gtk-2.0/2.10.0/immodules/*.so>
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/etc/gtk-2.0/gtk.immodules'
>> failed with exit code 127
>>
>> Traceback (most recent call last):
>>
>>   File "./bin/install.py", line 97, in <module>
>>
>>     installer(sys.argv[1:]).install()
>>
>>   File
>> "/scratch/jenkins_slave/workspace/dials_install_dls_module/dials-installer-dev/lib/libtbx/auto_build/install_distribution.py",
>> line 197, in install
>>
>>     self.install_from_binary()
>>
>>   File
>> "/scratch/jenkins_slave/workspace/dials_install_dls_module/dials-installer-dev/lib/libtbx/auto_build/install_distribution.py",
>> line 318, in install_from_binary
>>
>>     self.reconfigure(log=log)
>>
>>   File
>> "/scratch/jenkins_slave/workspace/dials_install_dls_module/dials-installer-dev/lib/libtbx/auto_build/install_distribution.py",
>> line 484, in reconfigure
>>
>>     call(args=args, log=log, verbose=self.options.verbose)
>>
>>   File
>> "/scratch/jenkins_slave/workspace/dials_install_dls_module/dials-installer-dev/lib/libtbx/auto_build/installer_utils.py",
>> line 81, in call
>>
>>     raise RuntimeError("Call to '%s' failed with exit code %d" % (args,
>> rc))
>>
>> RuntimeError: Call to
>> '/dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/base/bin/python
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/modules/cctbx_project/libtbx/configure.py
>> --current_working_directory
>> /dls/science/groups/scisoft/DIALS/CD/latest/dials-dev20160610/build dials
>> xia2 iota prime' failed with exit code 1
>>
>>
>>
>>
>>
>> Markus Gerstel MBCS
>>
>> Postdoctoral Research Associate
>>
>> Tel: +44 1235 778698
>>
>>
>>
>> Diamond Light Source Ltd.
>>
>> Diamond House
>>
>> Harwell Science & Innovation Campus
>>
>> Didcot
>>
>> Oxfordshire
>>
>> OX11 0DE
>>
>>
>>
>>
>>
>> --
>>
>> This e-mail and any attachments may contain confidential, copyright and
>> or privileged material, and are for the use of the intended addressee only.
>> If you are not the intended addressee or an authorised recipient of the
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>> use, copy, retain, distribute or disclose the information in or attached to
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>> Any opinions expressed within this e-mail are those of the individual and
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>> Diamond Light Source Ltd. cannot guarantee that this e-mail or any
>> attachments are free from viruses and we cannot accept liability for any
>> damage which you may sustain as a result of software viruses which may be
>> transmitted in or with the message.
>> Diamond Light Source Limited (company no. 4375679). Registered in England
>> and Wales with its registered office at Diamond House, Harwell Science and
>> Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom
>>
>>
>>
>> _______________________________________________
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>>
>>
>>
>>
>>
>> --
>>
>> This e-mail and any attachments may contain confidential, copyright and
>> or privileged material, and are for the use of the intended addressee only.
>> If you are not the intended addressee or an authorised recipient of the
>> addressee please notify us of receipt by returning the e-mail and do not
>> use, copy, retain, distribute or disclose the information in or attached to
>> the e-mail.
>> Any opinions expressed within this e-mail are those of the individual and
>> not necessarily of Diamond Light Source Ltd.
>> Diamond Light Source Ltd. cannot guarantee that this e-mail or any
>> attachments are free from viruses and we cannot accept liability for any
>> damage which you may sustain as a result of software viruses which may be
>> transmitted in or with the message.
>> Diamond Light Source Limited (company no. 4375679). Registered in England
>> and Wales with its registered office at Diamond House, Harwell Science and
>> Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom
>>
>>
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>
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