Bootstrap build started on Sat Apr 12 06:01:20 2025 ALLUSERSPROFILE=C:\ProgramData APPDATA=C:\Users\phaserbuilder\AppData\Roaming COMMANDPROMPTTYPE=Native COMMONPROGRAMFILES=C:\Program Files\Common Files COMMONPROGRAMFILES(X86)=C:\Program Files (x86)\Common Files COMMONPROGRAMW6432=C:\Program Files\Common Files COMPUTERNAME=AZIMUTH COMSPEC=C:\WINDOWS\system32\cmd.exe DEFLOGDIR=C:\ProgramData\McAfee\Endpoint Security\Logs DEVENVDIR=C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\ DRIVERDATA=C:\Windows\System32\Drivers\DriverData EXTENSIONSDKDIR=C:\Program Files (x86)\Microsoft SDKs\Windows Kits\10\ExtensionSDKs FRAMEWORK40VERSION=v4.0 FRAMEWORKDIR=C:\WINDOWS\Microsoft.NET\Framework64\ FRAMEWORKDIR64=C:\WINDOWS\Microsoft.NET\Framework64 FRAMEWORKVERSION=v4.0.30319 FRAMEWORKVERSION64=v4.0.30319 GIT_SSH=C:\Windows\System32\OpenSSH\ssh.exe HTMLHELPDIR=C:\Program Files (x86)\HTML Help Workshop INCLUDE=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\ATLMFC\include;C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\include;C:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\ucrt;C:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\shared;C:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\um;C:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\winrt;C:\Program Files (x86)\Windows Kits\10\include\10.0.19041.0\cppwinrt LIB=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\ATLMFC\lib\amd64;C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\lib\amd64;C:\Program Files (x86)\Windows Kits\10\lib\10.0.19041.0\ucrt\x64;C:\Program Files (x86)\Windows Kits\10\lib\10.0.19041.0\um\x64 LIBPATH=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\ATLMFC\lib\amd64;C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\lib\amd64;C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\lib\store\references;C:\Program Files (x86)\Windows Kits\10\UnionMetadata\10.0.19041.0;C:\Program Files (x86)\Windows Kits\10\References\10.0.19041.0;C:\WINDOWS\Microsoft.NET\Framework64\v4.0.30319 LOCALAPPDATA=C:\Users\phaserbuilder\AppData\Local NUMBER_OF_PROCESSORS=24 ONEDRIVE=C:\Users\phaserbuilder\OneDrive OS=Windows_NT PATH=C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\\Extensions\Microsoft\IntelliCode\CLI;C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\bin\amd64;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\CommonExtensions\Microsoft\TestWindow;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\CommonExtensions\Microsoft\TeamFoundation\Team Explorer;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\MSBuild\Current\bin\Roslyn;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Team Tools\Performance Tools\x64;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Team Tools\Performance Tools;C:\Program Files (x86)\Microsoft Visual Studio\Shared\Common\VSPerfCollectionTools\vs2019\\x64;C:\Program Files (x86)\Microsoft Visual Studio\Shared\Common\VSPerfCollectionTools\vs2019\;C:\Program Files (x86)\HTML Help Workshop;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\Tools\devinit;C:\Program Files (x86)\Windows Kits\10\bin\10.0.19041.0\x64;C:\Program Files (x86)\Windows Kits\10\bin\x64;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\\MSBuild\Current\Bin;C:\WINDOWS\Microsoft.NET\Framework64\v4.0.30319;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\Tools\;C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\WINDOWS\System32\WindowsPowerShell\v1.0\;C:\WINDOWS\System32\OpenSSH\;C:\Utilities;C:\Program Files\TortoiseSVN\bin;C:\Program Files (x86)\NSIS\Unicode;C:\Program Files\Git\cmd;C:\Program Files\PuTTY\;C:\Program Files\TortoiseGit\bin;C:\Program Files\dotnet\;C:\Users\phaserbuilder\AppData\Local\Microsoft\WindowsApps;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\VC\Tools\Llvm\x64\bin;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\CommonExtensions\Microsoft\CMake\CMake\bin;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\CommonExtensions\Microsoft\CMake\Ninja;C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\IDE\VC\Linux\bin\ConnectionManagerExe PATHEXT=.COM;.EXE;.BAT;.CMD;.VBS;.VBE;.JS;.JSE;.WSF;.WSH;.MSC;.PY;.PYW PLATFORM=x64 PROCESSOR_ARCHITECTURE=AMD64 PROCESSOR_IDENTIFIER=Intel64 Family 6 Model 44 Stepping 2, GenuineIntel PROCESSOR_LEVEL=6 PROCESSOR_REVISION=2c02 PROGRAMDATA=C:\ProgramData PROGRAMFILES=C:\Program Files PROGRAMFILES(X86)=C:\Program Files (x86) PROGRAMW6432=C:\Program Files PROMPT=$P$G PSMODULEPATH=%ProgramFiles%\WindowsPowerShell\Modules;C:\WINDOWS\system32\WindowsPowerShell\v1.0\Modules PUBLIC=C:\Users\Public SYSTEMDRIVE=C: SYSTEMROOT=C:\WINDOWS TEMP=C:\Users\phaserbuilder\AppData\Local\Temp TMP=C:\Users\phaserbuilder\AppData\Local\Temp UCRTVERSION=10.0.19041.0 UNIVERSALCRTSDKDIR=C:\Program Files (x86)\Windows Kits\10\ USERDOMAIN=AZIMUTH USERNAME=phaserbuilder USERPROFILE=C:\Users\phaserbuilder VCIDEINSTALLDIR=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\ VCINSTALLDIR=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\ VCTOOLSINSTALLDIR=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\ VCTOOLSREDISTDIR=C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\Redist\ VISUALSTUDIOVERSION=16.0 VS140COMNTOOLS=C:\Program Files (x86)\Microsoft Visual Studio 14.0\Common7\Tools\ VS160COMNTOOLS=C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\Tools\ VSCMD_ARG_APP_PLAT=Desktop VSCMD_ARG_HOST_ARCH=x64 VSCMD_ARG_TGT_ARCH=x64 VSCMD_ARG_VCVARS_VER=14.0 VSCMD_VER=16.11.29 VSINSTALLDIR=C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\ WINDIR=C:\WINDOWS WINDOWSLIBPATH=C:\Program Files (x86)\Windows Kits\10\UnionMetadata\10.0.19041.0;C:\Program Files (x86)\Windows Kits\10\References\10.0.19041.0 WINDOWSSDKBINPATH=C:\Program Files (x86)\Windows Kits\10\bin\ WINDOWSSDKDIR=C:\Program Files (x86)\Windows Kits\10\ WINDOWSSDKLIBVERSION=10.0.19041.0\ WINDOWSSDKVERBINPATH=C:\Program Files (x86)\Windows Kits\10\bin\10.0.19041.0\ WINDOWSSDKVERSION=10.0.19041.0\ __DEVINIT_PATH=C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\Common7\Tools\devinit\devinit.exe __DOTNET_ADD_64BIT=1 __DOTNET_PREFERRED_BITNESS=64 __VSCMD_PREINIT_PATH=C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\WINDOWS\System32\WindowsPowerShell\v1.0\;C:\WINDOWS\System32\OpenSSH\;C:\Utilities;C:\Program Files\TortoiseSVN\bin;C:\Program Files (x86)\NSIS\Unicode;C:\Program Files\Git\cmd;C:\Program Files\PuTTY\;C:\Program Files\TortoiseGit\bin;C:\Program Files\dotnet\;C:\Users\phaserbuilder\AppData\Local\Microsoft\WindowsApps __VSCMD_SCRIPT_ERR_COUNT=0 Using compiler: Microsoft (R) C/C++ Optimizing Compiler Version 19.00.24247.2 for x64 Copyright (C) Microsoft Corporation. All rights reserved. curl https://gitlab.developers.cam.ac.uk/scm/haematology/readgroup/phaser_regression/-/raw/master/MakeRegressionTestContents.py > MakeRegressionTestContents.py % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 8384 100 8384 0 0 35812 0 --:--:-- --:--:-- --:--:-- 36611 None curl https://raw.githubusercontent.com/cctbx/cctbx_project/master/libtbx/auto_build/bootstrap.py > bootstrap.py % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 106k 100 106k 0 0 391k 0 --:--:-- --:--:-- --:--:-- 397k None "C:\Program Files\Python38\python.exe" bootstrap.py --builder=voyager --use_conda --verbose --python=38 --nproc=23 C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current>((ROBOCOPY empty dist /MIR /COPYALL 1>nul ) & rmdir /S /Q dist\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current>((ROBOCOPY empty tests /MIR /COPYALL 1>nul ) & rmdir /S /Q tests\ & ) C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current>((ROBOCOPY empty tmp /MIR /COPYALL 1>nul ) & rmdir /S /Q tmp\ & ) The system cannot find the file specified. Already up to date. Already up to date. Already up to date. Already up to date. Already up to date. Already up to date. From https://github.com/cctbx/cctbx_project f5c7ba9ee6..a184b779c3 master -> origin/master Updating f5c7ba9ee6..a184b779c3 Fast-forward .../command_line/build_cctbx_api_site.csh | 36 ++++++++++- cctbx_website/command_line/edit_for_boost.py | 75 ++++++++++++++++++++++ iotbx/examples/pdb_hierarchy.py | 23 +++++++ scitbx/__init__.py | 7 ++ scitbx/array_family/__init__.py | 11 ++++ scitbx/boost_python/__init__.py | 5 ++ scitbx/dtmin/__init__.py | 5 ++ scitbx/examples/__init__.py | 5 ++ scitbx/graph/__init__.py | 5 ++ scitbx/lbfgs/tst_func_free_line_search.py | 9 ++- scitbx/libtbx_refresh.py | 7 +- scitbx/lstbx/__init__.py | 5 ++ scitbx/lstbx/tests/__init__.py | 5 ++ scitbx/math/boost_python/__init__.py | 5 ++ scitbx/math/tests/__init__.py | 5 ++ scitbx/math/tests/tst_bessel.py | 17 +++-- scitbx/python_utils/__init__.py | 5 ++ scitbx/rigid_body/essence/__init__.py | 5 ++ scitbx/rigid_body/proto/__init__.py | 5 ++ scitbx/source_generators/__init__.py | 5 ++ scitbx/source_generators/array_family/__init__.py | 5 ++ scitbx/stl/__init__.py | 5 ++ scitbx/tests/tst_basic.py | 19 ++++-- 23 files changed, 258 insertions(+), 16 deletions(-) create mode 100644 cctbx_website/command_line/edit_for_boost.py Writing files containing version information for cctbx_project =============================================================================== Wrote C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\libtbx\..\..\cctbx_project\cctbx_version.txt Wrote C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\libtbx\..\..\cctbx_project\cctbx_version.h Wrote C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\libtbx\..\..\cctbx_project\setup.py =============================================================================== Already up to date. Already up to date. Already up to date. Already up to date. Already up to date. Base conda installation: C:\Users\phaserbuilder\NightlyBuilds\PhaserPy3VC2008\Current\mc3 Installing voyager environment with: C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\phasertng\conda_envs\phasertng_py38_win-64.txt Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done Completed installation into: C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base Python: 3.8.13 "C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\python.exe" 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: True Boost threads enabled: True Enable CUDA: False Enable KOKKOS: False Use conda: True Use opt_resources if available: False Use environment flags: False Enable C++11: False command_version_suffix: None Relocatable paths anchored at: c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build Top-down list of all modules involved: voyager_regression "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\voyager_regression" phaser_voyager "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phaser_voyager" phasertng "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phasertng" phaser_regression "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phaser_regression" phaser "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phaser" tntbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\tntbx" mmtbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\mmtbx" reduce "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\reduce" iotbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\iotbx" ccp4io+adaptbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\ccp4io" "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\ccp4io_adaptbx" smtbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\smtbx" ucif "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\ucif" crys3d "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\crys3d" cctbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\cctbx" scitbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx" fable "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\fable" cma_es "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\cma_es" omptbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\omptbx" boost+adaptbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\boost" "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\boost_adaptbx" tbxx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\tbxx" chiltbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\chiltbx" libtbx "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\libtbx" Creating files in build directory: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build" dispatcher_include_template.bat setpaths.bat setpaths_all.bat setpaths_debug.bat unsetpaths.bat SConstruct Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\libtbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\boost_adaptbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\fable\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\cctbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\crys3d\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\smtbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\iotbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\reduce\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\mmtbx\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phaser\phaser\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phaser_regression\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phasertng\phasertng\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phasertng\phasertng\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\phaser_voyager\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\voyager_regression\command_line" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\libtbx\libtbx_refresh.py" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\boost_adaptbx\libtbx_refresh.py" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx\libtbx_refresh.py" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\cctbx\libtbx_refresh.py" Generating C++ files in: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\cctbx\eltbx" Generating C++ files in: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include\cctbx\boost_python" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\crys3d\libtbx_refresh.py" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\smtbx\libtbx_refresh.py" Generating C++ files in: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include\smtbx\boost_python" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\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: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\reduce\libtbx_refresh.py" Processing: "c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\mmtbx\libtbx_refresh.py" Done. Base conda installation: C:\Users\phaserbuilder\NightlyBuilds\PhaserPy3VC2008\Current\mc3 conda_setpaths.bat has been written successfully. conda_unsetpaths.bat has been written successfully. scons: Reading SConscript files ... MSVC_VERSION: 14.0 libtbx.scons: OpenMP is available. BOOST_VERSION: 107400 phaser: Distributed version phaser: Generating C++ and libtbx.phil defaults files phaser: Building shared version Access denied - . File not found - -NAME File not found - -EXEC File not found - RM File not found - -RF File not found - {} File not found - \; Checking for C library phaserncs... cl : Command line warning D9002 : ignoring unknown option '/std:c++11' Edge.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' EnsembleSymmetry.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/vec3.h(5): fatal error C1083: Cannot open include file: 'scitbx/array_family/operator_traits_builtin.h': No such file or directory no No phaserncs library phasertng: Distributed version phasertng: Building shared version scons: done reading SConscript files. scons: Building targets ... cl /Focctbx\maptbx\blobs_cmd.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\maptbx\blobs_cmd.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' blobs_cmd.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/array_family/accessors/flex_grid.h(6): fatal error C1083: Cannot open include file: 'scitbx/array_family/small_reductions.h': No such file or directory cl /Focctbx\maptbx\asymmetric_map.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\maptbx\asymmetric_map.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\maptbx\skeletons.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\maptbx\skeletons.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' asymmetric_map.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' skeletons.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/vec3.h(5): fatal error C1083: Cannot open include file: 'scitbx/array_family/operator_traits_builtin.h': No such file or directory c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/vec3.h(5): fatal error C1083: Cannot open include file: 'scitbx/array_family/operator_traits_builtin.h': No such file or directory cl /Focctbx\maptbx\dijkstra.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\maptbx\dijkstra.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Foiotbx\xplor\map_reader.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\iotbx\xplor\map_reader.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' dijkstra.cpp cl /Foiotbx\xplor\map_writer.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\iotbx\xplor\map_writer.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\sgtbx\direct_space_asu\proto\cut.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\sgtbx\direct_space_asu\proto\cut.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\sgtbx\direct_space_asu\proto\reference_table.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\sgtbx\direct_space_asu\proto\reference_table.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\sgtbx\direct_space_asu\proto\direct_space_asu.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\sgtbx\direct_space_asu\proto\direct_space_asu.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' map_reader.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' map_writer.cpp cl /Focctbx\eltbx\basic.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\eltbx\basic.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' cut.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' reference_table.cpp cl /Focctbx\eltbx\xray_scattering\it1992.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\eltbx\xray_scattering\it1992.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' basic.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' direct_space_asu.cpp cl /Focctbx\eltbx\xray_scattering\wk1995.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\eltbx\xray_scattering\wk1995.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\xray_scattering\n_gaussian_raw.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\eltbx\xray_scattering\n_gaussian_raw.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\xray_scattering\n_gaussian.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\eltbx\xray_scattering\n_gaussian.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/array_family/accessors/flex_grid.h(6): fatal error C1083: Cannot open include file: 'scitbx/array_family/small_reductions.h': No such file or directory cl /Focctbx\eltbx\fp_fdp.obj /c C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules\cctbx_project\cctbx\eltbx\fp_fdp.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\henke.obj /c cctbx\eltbx\henke.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\henke_tables_01_12.obj /c cctbx\eltbx\henke_tables_01_12.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\henke_tables_13_24.obj /c cctbx\eltbx\henke_tables_13_24.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\henke_tables_25_36.obj /c cctbx\eltbx\henke_tables_25_36.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl : Command line warning D9002 : ignoring unknown option '/std:c++11' wk1995.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' it1992.cpp cl /Focctbx\eltbx\henke_tables_37_48.obj /c cctbx\eltbx\henke_tables_37_48.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\henke_tables_49_60.obj /c cctbx\eltbx\henke_tables_49_60.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include cl /Focctbx\eltbx\henke_tables_61_72.obj /c cctbx\eltbx\henke_tables_61_72.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include scons: *** [cctbx\maptbx\blobs_cmd.obj] Error 2 cl /Focctbx\eltbx\henke_tables_73_84.obj /c cctbx\eltbx\henke_tables_73_84.cpp /GR /EHsc /DHAVE_SNPRINTF /std:c++11 /nologo /D_SECURE_SCL=0 /D_CRT_SECURE_NO_DEPRECATE /DNOMINMAX /DWIN32 /DDLL_EXPORTS /D_WIN32_WINNT=_WIN32_WINNT_WIN7 /bigobj /wd4996 /wd4068 /Z7 /Zm800 /MD /DNDEBUG /O2 /fp:fast /DBOOST_ALL_NO_LIB /DHAVE_SNPRINTF /openmp /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\include /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\build\include /Ic:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project /IC:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\conda_base\Library\include scons: *** [cctbx\maptbx\asymmetric_map.obj] Error 2 scons: *** [cctbx\maptbx\skeletons.obj] Error 2 scons: *** [cctbx\maptbx\dijkstra.obj] Error 2 cl : Command line warning D9002 : ignoring unknown option '/std:c++11' n_gaussian_raw.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/array_family/accessors/flex_grid.h(6): fatal error C1083: Cannot open include file: 'scitbx/array_family/small_reductions.h': No such file or directory scons: *** [iotbx\xplor\map_reader.obj] Error 2 cl : Command line warning D9002 : ignoring unknown option '/std:c++11' n_gaussian.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/array_family/accessors/flex_grid.h(6): fatal error C1083: Cannot open include file: 'scitbx/array_family/small_reductions.h': No such file or directory scons: *** [iotbx\xplor\map_writer.obj] Error 2 cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_13_24.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' fp_fdp.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_37_48.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/vec3.h(5): fatal error C1083: Cannot open include file: 'scitbx/array_family/operator_traits_builtin.h': No such file or directory cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_01_12.cpp scons: *** [cctbx\sgtbx\direct_space_asu\proto\cut.obj] Error 2 cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_25_36.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_73_84.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_61_72.cpp cl : Command line warning D9002 : ignoring unknown option '/std:c++11' henke_tables_49_60.cpp c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/vec3.h(5): fatal error C1083: Cannot open include file: 'scitbx/array_family/operator_traits_builtin.h': No such file or directory scons: *** [cctbx\sgtbx\direct_space_asu\proto\reference_table.obj] Error 2 c:\users\phaserbuilder\nightlybuilds\phasertngvc2015\current\modules\cctbx_project\scitbx/vec3.h(5): fatal error C1083: Cannot open include file: 'scitbx/array_family/operator_traits_builtin.h': No such file or directory scons: *** [cctbx\sgtbx\direct_space_asu\proto\direct_space_asu.obj] Error 2 scons: building terminated because of errors. usr+sys time: 11.45 seconds wall clock time: 106.59 seconds Performing actions: hot update base build Installing base packages using: C:\Program Files\Python38\python.exe modules\cctbx_project\libtbx\auto_build\install_conda.py --builder=voyager --python=38 ===== Running in .: deleting dist, tests, tmp ===== Running in modules\phasertng: git pull --rebase ===== Running in modules\annlib_adaptbx: git pull --rebase ===== Running in modules\phaser_voyager: git pull --rebase ===== Running in modules\ccp4io_adaptbx: git pull --rebase ===== Running in modules\voyager_regression: git pull --rebase ===== Running in modules\tntbx: git pull --rebase ===== Running in modules\cctbx_project: git pull --rebase ===== Running in modules\cctbx_project: C:\Program Files\Python38\python.exe libtbx\version.py ===== Running in modules\annlib: git pull --rebase ===== Running in modules\phaser_regression: git pull --rebase ===== Running in modules\reduce: git pull --rebase ===== Running in modules\ccp4io: git pull --rebase WARNING: Can not update existing git repository! You are not on a branch. This may be legitimate when run eg. via Jenkins, but be aware that you cannot commit any changes ===== Running in modules\phaser: git pull --rebase removing .pyc files in C:\Users\phaserbuilder\NightlyBuilds\PhaserTNGVC2015\Current\modules, walk? True removed 535 files ===== Running in .: base ===== Running in build: run configure.py ===== Running in build: save configure command ===== Running in build: Writing additional setup scripts for conda. ===== Running in build: libtbx.scons.bat Process failed with return code 2 None