<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class=""><br class=""></div><div class="">OK the problem seems to be solved by running:</div><div class=""><br class=""></div><div class="">xcode-select â€”install</div><div class=""><br class=""></div><div class="">thanks anyway,</div><div class="">sorry for bothering,</div><div class="">ciao,</div><div class="">S</div><br class=""><div><blockquote type="cite" class=""><div class="">On 12 Sep 2016, at 16:22, Sebastiano Pasqualato &lt;<a href="mailto:sebastiano.pasqualato@gmail.com" class="">sebastiano.pasqualato@GMAIL.COM</a>&gt; wrote:</div><br class="Apple-interchange-newline"><div class=""><meta http-equiv="Content-Type" content="text/html charset=us-ascii" class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class=""><br class=""></div><div class="">Hi there,</div><div class="">I am trying to run Phenix Rosetta Refinement on my laptop, which is running MacOSX 10.11.6 (El Capitan) with XQuartz&nbsp;2.7.9.</div><div class="">I have followed the instructions on this page:</div><div class=""><br class=""></div><div class=""><a href="https://www.phenix-online.org/documentation/reference/rosetta_refine.html" class="">https://www.phenix-online.org/documentation/reference/rosetta_refine.html</a></div><div class=""><br class=""></div><div class="">and specifically&nbsp;</div><div class=""><br class=""></div><font color="#0433ff" class="">Once you have both a Phenix installation and a Rosetta source distribution, you can build the hybrid system with this command (located in the&nbsp;Phenix tree):<br class=""><br class=""></font><div class=""><font color="#0433ff" class="">rosetta.build_phenix_interface nproc=X</font></div><br class="Apple-interchange-newline">Unfortunately, when I do that, the building does not proceed flawlessly, but instead stops with the message the I report below.<div class="">Has someone gone through the same and can tell me how to set up Rosetta to be used with Phenix?</div><div class=""><br class=""></div><div class="">Thanks in advance for the help,</div><div class="">Sebastiano</div><div class=""><br class=""></div><div class=""><div class=""><font face="Courier New" style="font-size: 11px;" class=""><b class="">Seba@host028:</b>~&gt;&nbsp;</font><span style="font-size: 11px; font-family: 'Courier New';" class="">rosetta.build_phenix_interface nproc=8</span></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">False</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">scons: Reading SConscript files ...</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">Running versioning script ... xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">Done. (0.0 seconds)</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">Number of option files updated: 0</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">Total 3741 options.</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">Finished updating ResidueProperty code -- no changes needed</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">Finished updating VariantType code -- no changes needed</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">scons: done reading SConscript files.</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">scons: Building targets ...</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/apps/public/AbinitioRelax.o -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/apps/public/<a href="http://abinitiorelax.cc/" class="">AbinitioRelax.cc</a></font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/devel/init.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/devel/<a href="http://init.cc/" class="">init.cc</a></font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/devel/svn_version.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/devel/svn_version.cc</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/protocols/init/init.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/protocols/init/<a href="http://init.cc/" class="">init.cc</a></font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/DownstreamRMSEvaluator.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/protocols/match/output/<a href="http://downstreamrmsevaluator.cc/" class="">DownstreamRMSEvaluator.cc</a></font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/LimitHitsPerRotamerFilter.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/protocols/match/output/<a href="http://limithitsperrotamerfilter.cc/" class="">LimitHitsPerRotamerFilter.cc</a></font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/MatchConsolidator.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/protocols/match/output/<a href="http://matchconsolidator.cc/" class="">MatchConsolidator.cc</a></font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/apps/public/AbinitioRelax.o] Error 1</font></div><div class=""><font face="Courier New" style="font-size: 11px;" class="">clang++ -o build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/MatchEvaluator.os -c -isystem external/boost_1_55_0/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -std=c++11 -march=core2 -mtune=generic -pipe -Qunused-arguments -DUNUSUAL_ALLOCATOR_DECLARATION -ftemplate-depth-256 -stdlib=libstdc++ -W -Wall -Wextra -pedantic -Werror -Wno-long-long -Wno-strict-aliasing -march=native -mtune=native -stdlib=libc++ -Wno-unused-variable -O3 -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DCXX11 -DPTR_STD -DNDEBUG -DWITH_PYTHON=1 -Isrc -Iexternal/include -Isrc/platform/macos/64/clang -Isrc/platform/macos/64 -Isrc/platform/macos -Iexternal/boost_1_55_0 -Iexternal/libxml2/include -Iexternal -Iexternal/dbio -I/usr/include -I/usr/local/include -Iexternal/include/python2.7 src/protocols/match/output/<a href="http://matchevaluator.cc/" class="">MatchEvaluator.cc</a></font></div><div class=""><font face="Courier New" class=""><span style="font-size: 11px;" class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/devel/init.os] Error 1<br class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/devel/svn_version.os] Error 1<br class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/protocols/init/init.os] Error 1<br class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/DownstreamRMSEvaluator.os] Error 1<br class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/LimitHitsPerRotamerFilter.os] Error 1<br class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/MatchConsolidator.os] Error 1<br class="">xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun<br class="">scons: *** [build/src/release/macos/15.6/64/x86/clang/python/protocols/match/output/MatchEvaluator.os] Error 1<br class="">scons: building terminated because of errors.<br class=""><b class="">Seba@host028</b>:~&gt;&nbsp;</span></font></div>
<br class=""><div class="">
<div style="letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class=""><div class="" style="orphans: 2; text-align: -webkit-auto; widows: 2; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">--&nbsp;<br class=""><b class="">Sebastiano Pasqualato, PhD</b><br class="">Crystallography Unit<br class="">Department of Experimental Oncology<br class="">European Institute of Oncology<br class="">IFOM-IEO Campus<br class="">via Adamello, 16<br class="">20139 - Milano<br class="">Italy<br class=""><br class="">tel +39 02 9437 5167<br class="">fax +39 02 9437 5990</div><div class="" style="orphans: 2; text-align: -webkit-auto; widows: 2; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">web&nbsp;<a href="http://is.gd/IEOXtalUnit" class="">http://is.gd/IEOXtalUnit</a></div></div></div></div>
</div>
<br class=""></div></div></div></blockquote></div><br class=""></body></html>