[MacPorts] #49620: apbs fails to upgrade
#49620: apbs fails to upgrade -----------------------+-------------------------------- Reporter: summers@… | Owner: macports-tickets@… Type: update | Status: new Priority: High | Milestone: Component: ports | Version: 2.3.4 Keywords: | Port: -----------------------+-------------------------------- Attempted to upgrade apbs; El Capitan 10.11.2 Beta (15C31f); MacBook Pro Late 2013 ---> Building apbs Error: org.macports.build for port apbs returned: command execution failed Please see the log file for port apbs for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_apbs/apbs/main.log Error: Unable to upgrade port: 1 -- Ticket URL: <https://trac.macports.org/ticket/49620> MacPorts <https://www.macports.org/> Ports system for OS X
#49620: apbs: fatal error: 'Eigen/Core' file not found ------------------------+----------------------------------- Reporter: summers@… | Owner: howarth.at.macports@… Type: update | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.3.4 Resolution: | Keywords: Port: apbs | ------------------------+----------------------------------- Changes (by ryandesign@…): * priority: High => Normal * owner: macports-tickets@… => howarth.at.macports@… * port: => apbs Old description:
Attempted to upgrade apbs; El Capitan 10.11.2 Beta (15C31f); MacBook Pro Late 2013
---> Building apbs Error: org.macports.build for port apbs returned: command execution failed Please see the log file for port apbs for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_apbs/apbs/main.log Error: Unable to upgrade port: 1
New description: Attempted to upgrade apbs; El Capitan 10.11.2 Beta (15C31f); MacBook Pro Late 2013 {{{ ---> Building apbs Error: org.macports.build for port apbs returned: command execution failed Please see the log file for port apbs for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_apbs/apbs/main.log Error: Unable to upgrade port: 1 }}} -- -- Ticket URL: <https://trac.macports.org/ticket/49620#comment:1> MacPorts <https://www.macports.org/> Ports system for OS X
#49620: apbs: fatal error: 'Eigen/Core' file not found ------------------------+----------------------------------- Reporter: summers@… | Owner: howarth.at.macports@… Type: update | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.3.4 Resolution: | Keywords: Port: apbs | ------------------------+----------------------------------- Comment (by howarth.at.macports@…): The previous commit to update apbs to 1.4.1 should be reverted until this is fixed. -- Ticket URL: <https://trac.macports.org/ticket/49620#comment:2> MacPorts <https://www.macports.org/> Ports system for OS X
#49620: apbs: fatal error: 'Eigen/Core' file not found ------------------------+----------------------------------- Reporter: summers@… | Owner: howarth.at.macports@… Type: update | Status: closed Priority: Normal | Milestone: Component: ports | Version: 2.3.4 Resolution: fixed | Keywords: Port: apbs | ------------------------+----------------------------------- Changes (by dstrubbe@…): * status: new => closed * resolution: => fixed Comment: Fixed by disabling parallel build, r142365. See also ticket #49058. -- Ticket URL: <https://trac.macports.org/ticket/49620#comment:3> MacPorts <https://www.macports.org/> Ports system for OS X
#49620: apbs: fatal error: 'Eigen/Core' file not found ------------------------+----------------------------------- Reporter: summers@… | Owner: howarth.at.macports@… Type: update | Status: closed Priority: Normal | Milestone: Component: ports | Version: 2.3.4 Resolution: fixed | Keywords: Port: apbs | ------------------------+----------------------------------- Comment (by howarth.at.macports@…): The build still fails here with... {{{ [ 1%] Building CXX object src/geoflow/CMakeFiles/apbs_geoflow.dir/cpbconcz2.cpp.o cd /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work /apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow && /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++ -fpermissive -DNDEBUG -arch x86_64 -mmacosx-version-min=10.11 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work /apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src -std=c++0x -o CMakeFiles/apbs_geoflow.dir/cpbconcz2.cpp.o -c /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work /apbs-pdb2pqr- d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/cpbconcz2.cpp In file included from /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work /apbs-pdb2pqr- d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/cpbconcz2.cpp:65: In file included from /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work /apbs-pdb2pqr- d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/modules.h:60: /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work /apbs-pdb2pqr- d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/Mat.h:60:10: fatal error: 'Eigen/Core' file not found #include <Eigen/Core> ^ 1 error generated. make[2]: *** [src/geoflow/CMakeFiles/apbs_geoflow.dir/cpbconcz2.cpp.o] Error 1 }}} The following change... {{{ --- Portfile.orig 2015-11-10 13:00:50.000000000 -0500 +++ Portfile 2015-11-10 13:02:17.000000000 -0500 @@ -43,7 +43,9 @@ # get_filename_component called with incorrect number of arguments # To enable, need not only to fix that check, but also fix configure in tapipb directory to use chosen FC compiler. configure.args-append -DENABLE_OPENMP:BOOL=OFF \ - -DENABLE_BEM=OFF + -DENABLE_BEM=OFF \ + -DCMAKE_C_COMPILER_ARG1:STRING="-I${worksrcpath}/include" \ + -DCMAKE_CXX_COMPILER_ARG1:STRING="-I${worksrcpath}/include" test.run yes test { }}} -- Ticket URL: <https://trac.macports.org/ticket/49620#comment:4> MacPorts <https://www.macports.org/> Ports system for OS X
#49620: apbs: fatal error: 'Eigen/Core' file not found ------------------------+----------------------------------- Reporter: summers@… | Owner: howarth.at.macports@… Type: update | Status: reopened Priority: Normal | Milestone: Component: ports | Version: 2.3.4 Resolution: | Keywords: haspatch maintainer Port: apbs | ------------------------+----------------------------------- Changes (by raimue@…): * keywords: => haspatch maintainer * status: closed => reopened * resolution: fixed => -- Ticket URL: <https://trac.macports.org/ticket/49620#comment:5> MacPorts <https://www.macports.org/> Ports system for OS X
#49620: apbs: fatal error: 'Eigen/Core' file not found ------------------------+----------------------------------- Reporter: summers@… | Owner: howarth.at.macports@… Type: update | Status: closed Priority: Normal | Milestone: Component: ports | Version: 2.3.4 Resolution: fixed | Keywords: haspatch maintainer Port: apbs | ------------------------+----------------------------------- Changes (by raimue@…): * status: reopened => closed * resolution: => fixed Comment: Patch committed in r142371. -- Ticket URL: <https://trac.macports.org/ticket/49620#comment:6> MacPorts <https://www.macports.org/> Ports system for OS X
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