printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild reduce 2>&1 The package 'reduce' will be built without being installed. Reading build dependency for reduce-3.14.080821-1... Reading dependency for reduce-3.14.080821-1... Reading build conflict for reduce-3.14.080821-1... The following package will be rebuilt: reduce curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/reduce.3.14.080821.src.tgz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 1 5077k 1 93875 0 0 157k 0 0:00:32 --:--:-- 0:00:32 157k 13 5077k 13 684k 0 0 427k 0 0:00:11 0:00:01 0:00:10 427k 21 5077k 21 1081k 0 0 366k 0 0:00:13 0:00:02 0:00:11 366k 26 5077k 26 1324k 0 0 361k 0 0:00:14 0:00:03 0:00:11 360k 39 5077k 39 2009k 0 0 438k 0 0:00:11 0:00:04 0:00:07 438k 59 5077k 59 3004k 0 0 534k 0 0:00:09 0:00:05 0:00:04 577k 69 5077k 69 3513k 0 0 505k 0 0:00:10 0:00:06 0:00:04 529k 70 5077k 70 3577k 0 0 447k 0 0:00:11 0:00:07 0:00:04 495k 70 5077k 70 3578k 0 0 402k 0 0:00:12 0:00:08 0:00:04 431k 76 5077k 76 3872k 0 0 402k 0 0:00:12 0:00:09 0:00:03 369k 89 5077k 89 4531k 0 0 428k 0 0:00:11 0:00:10 0:00:01 308k 100 5077k 100 5077k 0 0 447k 0 0:00:11 0:00:11 --:--:-- 356k curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/reduce_wwPDB_het_dict.txt.zip % 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 2053k 0 1206 0 0 2969 0 0:11:48 --:--:-- 0:11:48 2970 4 2053k 4 99670 0 0 69527 0 0:00:30 0:00:01 0:00:29 69504 24 2053k 24 504k 0 0 233k 0 0:00:08 0:00:02 0:00:06 233k 56 2053k 56 1163k 0 0 371k 0 0:00:05 0:00:03 0:00:02 371k 92 2053k 92 1894k 0 0 459k 0 0:00:04 0:00:04 --:--:-- 459k 100 2053k 100 2053k 0 0 473k 0 0:00:04 0:00:04 --:--:-- 521k curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/reduce_het_dict.txt.zip % 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 2042k 0 1206 0 0 835 0 0:41:45 0:00:01 0:41:44 835 12 2042k 12 257k 0 0 152k 0 0:00:13 0:00:01 0:00:12 152k 47 2042k 47 968k 0 0 360k 0 0:00:05 0:00:02 0:00:03 360k 97 2042k 97 2000k 0 0 541k 0 0:00:03 0:00:03 --:--:-- 541k 100 2042k 100 2042k 0 0 548k 0 0:00:03 0:00:03 --:--:-- 548k Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-reduce-3.14.080821-1 /sw/build.build dpkg-deb: building package `fink-buildlock-reduce-3.14.080821-1' in `/sw/build.build/fink-buildlock-reduce-3.14.080821-1_2014.08.04-14.35.21_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-reduce-3.14.080821-1_2014.08.04-14.35.21_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-reduce-3.14.080821-1. (Reading database ... 4740 files and directories currently installed.) Unpacking fink-buildlock-reduce-3.14.080821-1 (from .../fink-buildlock-reduce-3.14.080821-1_2014.08.04-14.35.21_darwin-x86_64.deb) ... Setting up fink-buildlock-reduce-3.14.080821-1 (2014.08.04-14.35.21) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.leMav env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/reduce.3.14.080821.src.tgz reduce.3.14.080821.src/ reduce.3.14.080821.src/SConscript reduce.3.14.080821.src/Makefile reduce.3.14.080821.src/comment_out_OH_on_P_v3.0.pl reduce.3.14.080821.src/run_tests.py reduce.3.14.080821.src/comment_out_carboxylate_H_v3.0.pl reduce.3.14.080821.src/libpdb/ reduce.3.14.080821.src/libpdb/pdbrun5_write.i reduce.3.14.080821.src/libpdb/pdb_sprntf.cpp reduce.3.14.080821.src/libpdb/pdb_type.cpp reduce.3.14.080821.src/libpdb/pdb_sscanf.cpp reduce.3.14.080821.src/libpdb/SConscript reduce.3.14.080821.src/libpdb/pdb_read.o reduce.3.14.080821.src/libpdb/pdbrun6_write.i reduce.3.14.080821.src/libpdb/Makefile reduce.3.14.080821.src/libpdb/pdb++.3 reduce.3.14.080821.src/libpdb/pdb_sscanf.o reduce.3.14.080821.src/libpdb/pdb_chars.cpp reduce.3.14.080821.src/libpdb/pdb_type.o reduce.3.14.080821.src/libpdb/pdbrun6_read.i reduce.3.14.080821.src/libpdb/Makefile.macOSX reduce.3.14.080821.src/libpdb/pdb++.o reduce.3.14.080821.src/libpdb/pdb_chars.o reduce.3.14.080821.src/libpdb/read_format.i reduce.3.14.080821.src/libpdb/pdbrun5_read.i reduce.3.14.080821.src/libpdb/buildep.sgiirix reduce.3.14.080821.src/libpdb/pdbinput.cpp reduce.3.14.080821.src/libpdb/pdb++.cpp reduce.3.14.080821.src/libpdb/pdb++.h reduce.3.14.080821.src/libpdb/pdbinput.o reduce.3.14.080821.src/libpdb/pdb_read.cpp reduce.3.14.080821.src/libpdb/write_format.i reduce.3.14.080821.src/libpdb/.svn/ reduce.3.14.080821.src/libpdb/.svn/format reduce.3.14.080821.src/libpdb/.svn/text-base/ reduce.3.14.080821.src/libpdb/.svn/text-base/pdb++.cpp.svn-base reduce.3.14.080821.src/libpdb/.svn/text-base/pdb++.h.svn-base reduce.3.14.080821.src/libpdb/.svn/text-base/pdb_type.cpp.svn-base reduce.3.14.080821.src/libpdb/.svn/text-base/pdb_chars.cpp.svn-base 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reduce.3.14.080821.src/toolclasses/Stringclass.o reduce.3.14.080821.src/toolclasses/ListIter.h reduce.3.14.080821.src/toolclasses/Seq.cpp reduce.3.14.080821.src/toolclasses/Queue.h reduce.3.14.080821.src/toolclasses/DisjointSets.o reduce.3.14.080821.src/README.usingReduce.txt reduce.3.14.080821.src/reduce_het_dict.txt reduce.3.14.080821.src/adjust_het_dict.pl reduce.3.14.080821.src/comment_out_carboxylate_H_v2.3.pl reduce.3.14.080821.src/comment_out_OH_on_P.pl reduce.3.14.080821.src/reduce_wwPDB_het_dict.txt reduce.3.14.080821.src/reduce_src/ reduce.3.14.080821.src/reduce_src/RotMethyl.h reduce.3.14.080821.src/reduce_src/reduce.o reduce.3.14.080821.src/reduce_src/CliqueList.o reduce.3.14.080821.src/reduce_src/ResBlk.h reduce.3.14.080821.src/reduce_src/Mover.o reduce.3.14.080821.src/reduce_src/Makefile.linux reduce.3.14.080821.src/reduce_src/GraphToHoldScores.cpp reduce.3.14.080821.src/reduce_src/SConscript reduce.3.14.080821.src/reduce_src/CliqueList.h reduce.3.14.080821.src/reduce_src/StdResH.h reduce.3.14.080821.src/reduce_src/DotSph.o reduce.3.14.080821.src/reduce_src/RotMethyl.o reduce.3.14.080821.src/reduce_src/FlipMemo.cpp reduce.3.14.080821.src/reduce_src/Makefile reduce.3.14.080821.src/reduce_src/ElementInfo.cpp reduce.3.14.080821.src/reduce_src/BumperPoint.h reduce.3.14.080821.src/reduce_src/LocBlk.h reduce.3.14.080821.src/reduce_src/hybrid_36_c.o reduce.3.14.080821.src/reduce_src/CTab.o reduce.3.14.080821.src/reduce_src/AtomConn.o reduce.3.14.080821.src/reduce_src/Mover.cpp reduce.3.14.080821.src/reduce_src/AtomPositions.cpp reduce.3.14.080821.src/reduce_src/MoveableNode.cpp reduce.3.14.080821.src/reduce_src/CliqueList.cpp reduce.3.14.080821.src/reduce_src/GraphToHoldScores.h reduce.3.14.080821.src/reduce_src/Makefile.macOSX reduce.3.14.080821.src/reduce_src/PDBrec.o reduce.3.14.080821.src/reduce_src/AtomDescr.h reduce.3.14.080821.src/reduce_src/MoveableNode.h reduce.3.14.080821.src/reduce_src/FlipMemo.o reduce.3.14.080821.src/reduce_src/Mover.h reduce.3.14.080821.src/reduce_src/hybrid_36_c.h reduce.3.14.080821.src/reduce_src/RotDonor.o reduce.3.14.080821.src/reduce_src/reduce reduce.3.14.080821.src/reduce_src/CTab.h reduce.3.14.080821.src/reduce_src/PDBrec.h reduce.3.14.080821.src/reduce_src/CTab.cpp reduce.3.14.080821.src/reduce_src/neighbors.h reduce.3.14.080821.src/reduce_src/GraphToHoldScores.o reduce.3.14.080821.src/reduce_src/AtomPositions.h reduce.3.14.080821.src/reduce_src/DotSph.h reduce.3.14.080821.src/reduce_src/FlipMemo.h reduce.3.14.080821.src/reduce_src/ElementInfo.h reduce.3.14.080821.src/reduce_src/ElementInfo.o reduce.3.14.080821.src/reduce_src/StdResH.cpp reduce.3.14.080821.src/reduce_src/ResBlk.cpp reduce.3.14.080821.src/reduce_src/StdResH.o reduce.3.14.080821.src/reduce_src/RotMethyl.cpp reduce.3.14.080821.src/reduce_src/AtomDescr.cpp reduce.3.14.080821.src/reduce_src/DotSph.cpp reduce.3.14.080821.src/reduce_src/ResBlk.o reduce.3.14.080821.src/reduce_src/RotDonor.cpp reduce.3.14.080821.src/reduce_src/reduce.cpp reduce.3.14.080821.src/reduce_src/AtomConn.cpp reduce.3.14.080821.src/reduce_src/neighbors.cpp reduce.3.14.080821.src/reduce_src/.svn/ reduce.3.14.080821.src/reduce_src/.svn/format reduce.3.14.080821.src/reduce_src/.svn/text-base/ reduce.3.14.080821.src/reduce_src/.svn/text-base/FlipMemo.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/RotMethyl.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/neighbors.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/RotDonor.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/AtomConn.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/PDBrec.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/ElementInfo.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/ResBlk.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/Makefile.linux.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/ElementInfo.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/DotSph.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/hybrid_36_c.c.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/GraphToHoldScores.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/BumperPoint.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/Makefile.macOSX.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/AtomPositions.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/CTab.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/AtomPositions.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/AtomConn.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/AtomDescr.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/Mover.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/RotMethyl.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/FlipMemo.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/RotDonor.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/GraphToHoldScores.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/CliqueList.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/hybrid_36_c.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/PDBrec.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/Makefile.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/MoveableNode.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/CliqueList.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/StdResH.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/LocBlk.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/AtomDescr.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/DotSph.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/neighbors.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/ResBlk.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/MoveableNode.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/Mover.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/StdResH.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/reduce.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/SConscript.svn-base reduce.3.14.080821.src/reduce_src/.svn/text-base/CTab.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/ reduce.3.14.080821.src/reduce_src/.svn/prop-base/FlipMemo.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/RotMethyl.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/neighbors.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/RotDonor.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/AtomConn.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/PDBrec.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/ElementInfo.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/ResBlk.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/ElementInfo.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/DotSph.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/GraphToHoldScores.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/BumperPoint.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/AtomPositions.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/CTab.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/AtomPositions.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/AtomConn.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/AtomDescr.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/Mover.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/RotMethyl.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/FlipMemo.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/RotDonor.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/GraphToHoldScores.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/CliqueList.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/PDBrec.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/Makefile.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/MoveableNode.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/CliqueList.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/StdResH.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/LocBlk.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/AtomDescr.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/DotSph.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/neighbors.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/ResBlk.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/MoveableNode.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/Mover.h.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/StdResH.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/reduce.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/prop-base/CTab.cpp.svn-base reduce.3.14.080821.src/reduce_src/.svn/entries reduce.3.14.080821.src/reduce_src/.svn/props/ reduce.3.14.080821.src/reduce_src/.svn/tmp/ reduce.3.14.080821.src/reduce_src/.svn/tmp/text-base/ reduce.3.14.080821.src/reduce_src/.svn/tmp/prop-base/ reduce.3.14.080821.src/reduce_src/.svn/tmp/props/ reduce.3.14.080821.src/reduce_src/MoveableNode.o reduce.3.14.080821.src/reduce_src/AtomDescr.o reduce.3.14.080821.src/reduce_src/AtomConn.h reduce.3.14.080821.src/reduce_src/PDBrec.cpp reduce.3.14.080821.src/reduce_src/hybrid_36_c.c reduce.3.14.080821.src/reduce_src/RotDonor.h reduce.3.14.080821.src/reduce_src/AtomPositions.o sudo -u fink-bld [ENV] sh -c /tmp/fink.aLH7e unzip -o /sw/src/reduce_wwPDB_het_dict.txt.zip Archive: /sw/src/reduce_wwPDB_het_dict.txt.zip inflating: reduce_wwPDB_het_dict.txt sudo -u fink-bld [ENV] sh -c /tmp/fink.jOyj6 unzip -o /sw/src/reduce_het_dict.txt.zip Archive: /sw/src/reduce_het_dict.txt.zip inflating: reduce_het_dict.txt sudo -u fink-bld [ENV] sh -c /tmp/fink.HBGpw /tmp/fink.n1XoM # system-wide environment settings for zsh(1) if [ -x /usr/libexec/path_helper ]; then eval `/usr/libexec/path_helper -s` fi #!/bin/zsh -evf rm -f **/*.o rm -f **/*.a cd reduce_src perl -pi -e 's|/usr/local/reduce|/sw/share/reduce/reduce|g' Makefile* SConscript sudo -u fink-bld [ENV] sh -c /tmp/fink.Q4Iwi /tmp/fink.gE4s8 #!/bin/bash -evf make clean cleaning in /toolclasses... cleaning in /libpdb... cleaning in /reduce_src... make Start Compling: for i in toolclasses libpdb reduce_src ;\ do \ (cd $i ; echo "making" all "in /$i..."; \ /Applications/Xcode.app/Contents/Developer/usr/bin/make - --jobserver-fds=3,4 -j 'CXXDEBUGFLAGS=' all); \ done making all in /toolclasses... g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c UseCount.cpp -o UseCount.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c Point3d.cpp -o Point3d.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c Stringclass.cpp -o Stringclass.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c Hash.cpp -o Hash.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c utility.cpp -o utility.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c column_sprintf.cpp -o column_sprintf.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c column_sscanf.cpp -o column_sscanf.o g++ -O -DCHARFUNCMACROS -DINCTEMPLATEDEFNS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLISTFRIENDFIX -c DisjointSets.cpp -o DisjointSets.o column_sprintf.cpp:356:4: warning: add explicit braces to avoid dangling else [-Wdangling-else] else ^ 1 warning generated. Loading libtoolclasses.a ... done making all in /libpdb... g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdb_read.cpp -o pdb_read.o g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdb_sprntf.cpp -o pdb_sprntf.o g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdb_sscanf.cpp -o pdb_sscanf.o g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdb_chars.cpp -o pdb_chars.o g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdb_type.cpp -o pdb_type.o g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdb++.cpp -o pdb++.o g++ -O -DBOOLPREDEFINED -DHASSSCANFEXTERN -c pdbinput.cpp -o pdbinput.o pdb_sprntf.cpp:369:4: warning: add explicit braces to avoid dangling else [-Wdangling-else] else ^ 1 warning generated. Loading libpdb++.a ... done making all in /reduce_src... g++ -c GraphToHoldScores.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c reduce.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c CTab.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c ElementInfo.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c StdResH.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c ResBlk.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c AtomConn.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c AtomPositions.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c DotSph.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c Mover.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c RotMethyl.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c RotDonor.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c FlipMemo.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c CliqueList.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses reduce.cpp:519:20: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] else if(n = compArgStr(p+1, "NOBUILD", 7)){ ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ reduce.cpp:519:20: note: place parentheses around the assignment to silence this warning else if(n = compArgStr(p+1, "NOBUILD", 7)){ ^ ( ) reduce.cpp:519:20: note: use '==' to turn this assignment into an equality comparison else if(n = compArgStr(p+1, "NOBUILD", 7)){ ^ == g++ -c AtomDescr.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c PDBrec.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses g++ -c MoveableNode.cpp -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses cc -O3 -DAROMATICS_ACCEPT_HBONDS -DCHARFUNCMACROS -DBOOLPREDEFINED -DBRACKETOPERPARMS -DLEFT_JUSTIFY_NUC_RES_OK -DLISTFRIENDFIX -DINCTEMPLATEDEFNS -DHET_DICTIONARY='"/sw/share/reduce/reduce_wwPDB_het_dict.txt"' -DHET_DICTOLD='"/sw/share/reduce/reduce_het_dict.txt"' -I../libpdb -I../toolclasses -I/sw/include -c -o hybrid_36_c.o hybrid_36_c.c 1 warning generated. g++ -o reduce GraphToHoldScores.o reduce.o CTab.o ElementInfo.o StdResH.o ResBlk.o AtomConn.o AtomPositions.o DotSph.o Mover.o RotMethyl.o RotDonor.o FlipMemo.o CliqueList.o AtomDescr.o PDBrec.o MoveableNode.o hybrid_36_c.o -L../libpdb -lpdb++ -L../toolclasses -ltoolclasses -lm /bin/rm -rf /sw/build.build/root-reduce-3.14.080821-1 /bin/mkdir -p /sw/build.build/root-reduce-3.14.080821-1/sw /bin/mkdir -p /sw/build.build/root-reduce-3.14.080821-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-reduce-3.14.080821-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.BUW3q /tmp/fink.4up_Z #!/bin/bash -evf mkdir -p /sw/build.build/root-reduce-3.14.080821-1/sw/bin cp reduce_src/reduce /sw/build.build/root-reduce-3.14.080821-1/sw/bin/. mkdir -p /sw/build.build/root-reduce-3.14.080821-1/sw/share/reduce cp ../reduce_het_dict.txt /sw/build.build/root-reduce-3.14.080821-1/sw/share/reduce/. cp ../reduce_wwPDB_het_dict.txt /sw/build.build/root-reduce-3.14.080821-1/sw/share/reduce/. sudo -u fink-bld [ENV] sh -c /tmp/fink.TKQHY /usr/bin/install -d -m 700 /sw/build.build/root-reduce-3.14.080821-1/sw/share/doc/reduce /bin/cp -r README.usingReduce.txt /sw/build.build/root-reduce-3.14.080821-1/sw/share/doc/reduce/ /bin/chmod -R go=u-w /sw/build.build/root-reduce-3.14.080821-1/sw/share/doc/reduce /bin/rm -f /sw/build.build/root-reduce-3.14.080821-1/sw/info/dir /sw/build.build/root-reduce-3.14.080821-1/sw/info/dir.old /sw/build.build/root-reduce-3.14.080821-1/sw/share/info/dir /sw/build.build/root-reduce-3.14.080821-1/sw/share/info/dir.old Reverting ownership of install dir to root Writing control file... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-reduce-3.14.080821-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `reduce' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/reduce_3.14.080821-1_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-reduce-3.14.080821-1 (Reading database ... 4741 files and directories currently installed.) Removing fink-buildlock-reduce-3.14.080821-1 ...