[package - 120powerpc64-quarterly][biology/canu] Failed for canu-1.8_2 in build
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Tue May 14 17:32:15 UTC 2019
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: jwb at FreeBSD.org
Last committer: gerald at FreeBSD.org
Ident: $FreeBSD: branches/2019Q2/biology/canu/Makefile 487272 2018-12-12 01:35:33Z gerald $
Log URL: http://pylon.nyi.freebsd.org/data/120powerpc64-quarterly/501608/logs/canu-1.8_2.log
Build URL: http://pylon.nyi.freebsd.org/build.html?mastername=120powerpc64-quarterly&build=501608
Log:
=>> Building biology/canu
build started at Tue May 14 17:29:13 UTC 2019
port directory: /usr/ports/biology/canu
package name: canu-1.8_2
building for: FreeBSD 120powerpc64-quarterly-job-05 12.0-RELEASE-p3 FreeBSD 12.0-RELEASE-p3 1200086 powerpc
maintained by: jwb at FreeBSD.org
Makefile ident: $FreeBSD: branches/2019Q2/biology/canu/Makefile 487272 2018-12-12 01:35:33Z gerald $
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CC_OUTPUT_921dbbb2_308abb44=cc1plus: error: unrecognized command line option "-std=c++0x"
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=======================<phase: check-sanity >============================
===> License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> canu-1.8_2 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.10.5_5.txz
[120powerpc64-quarterly-job-05] Installing pkg-1.10.5_5...
[120powerpc64-quarterly-job-05] Extracting pkg-1.10.5_5: .......... done
===> canu-1.8_2 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of canu-1.8_2
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-1.8_2 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-1.8_2 for building
=> SHA256 Checksum OK for marbl-canu-v1.8_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-1.8_2 for building
===> Extracting for canu-1.8_2
=> SHA256 Checksum OK for marbl-canu-v1.8_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for canu-1.8_2
===> Applying FreeBSD patches for canu-1.8_2
/usr/bin/sed -i.bak -e 's|-O4||g' -e 's|-funroll-loops||g' -e 's|-fexpensive-optimizations||g' -e 's|amd64|powerpc64|g' /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/Makefile
/usr/bin/sed -i.bak -e 's|\\$bin/mhap-|/usr/local/share/java/classes/mhap-|g' /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/pipelines/canu/OverlapMhap.pm
/usr/bin/sed -i.bak -e 's|RealBin/lib|RealBin/../lib/perl5/site_perl/canu|g' /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/pipelines/canu.pl
===========================================================================
=======================<phase: build-depends >============================
===> canu-1.8_2 depends on executable: gmake - not found
===> Installing existing package /packages/All/gmake-4.2.1_3.txz
[120powerpc64-quarterly-job-05] Installing gmake-4.2.1_3...
[120powerpc64-quarterly-job-05] `-- Installing gettext-runtime-0.19.8.1_2...
[120powerpc64-quarterly-job-05] | `-- Installing indexinfo-0.3.1...
[120powerpc64-quarterly-job-05] | `-- Extracting indexinfo-0.3.1: .... done
[120powerpc64-quarterly-job-05] `-- Extracting gettext-runtime-0.19.8.1_2: .......... done
[120powerpc64-quarterly-job-05] Extracting gmake-4.2.1_3: .......... done
===> canu-1.8_2 depends on executable: gmake - found
===> Returning to build of canu-1.8_2
===> canu-1.8_2 depends on package: perl5>=5.28.r1<5.29 - not found
<snip>
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-extend.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-extend.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-forward.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-forward.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-reverse.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-reverse.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/overlapInCore/libedlib/edlib.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap overlapInCore/libedlib/edlib.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/NDalign.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/NDalign.C
utgcns/libNDalign/NDalign.C: In member function 'bool NDalign::processHits()':
utgcns/libNDalign/NDalign.C:660: warning: deprecated conversion from string constant to 'char*'
utgcns/libNDalign/NDalign.C: In member function 'bool NDalign::scanDeltaForBadness(bool, bool)':
utgcns/libNDalign/NDalign.C:724: warning: deprecated conversion from string constant to 'char*'
utgcns/libNDalign/NDalign.C: In member function 'void NDalign::realignForward(bool, bool)':
utgcns/libNDalign/NDalign.C:774: warning: deprecated conversion from string constant to 'char*'
utgcns/libNDalign/NDalign.C: In member function 'void NDalign::realignBackward(bool, bool)':
utgcns/libNDalign/NDalign.C:838: warning: deprecated conversion from string constant to 'char*'
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/Binomial_Bound.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/Binomial_Bound.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-allocateMoreSpace.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-allocateMoreSpace.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-extend.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-extend.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-forward.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-forward.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-reverse.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-reverse.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-addRead.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-addRead.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-appendBases.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-appendBases.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-applyAlignment.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-applyAlignment.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-baseCall.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-baseCall.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-mergeRefine.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-mergeRefine.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-refine.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-refine.C
utgcns/libcns/abAbacus-refine.C:1326:2: warning: #warning SKIPPING ALL REFINEMENTS
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus-refreshMultiAlign.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus-refreshMultiAlign.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abAbacus.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abAbacus.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abColumn.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abColumn.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/abMultiAlign.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/abMultiAlign.C
c++ -o /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/unitigConsensus.o -c -MD -O2 -pipe -fno-strict-aliasing -DNOBACKTRACE -I/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src -Iutility -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap utgcns/libcns/unitigConsensus.C
In file included from utgcns/libboost/boost/graph/adjacency_list.hpp:15,
from utgcns/libpbutgcns/AlnGraphBoost.H:69,
from utgcns/libcns/unitigConsensus.C:77:
utgcns/libboost/boost/config.hpp:57:33: error: boost/config/platform/bsd.hpp: No such file or directory
In file included from utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:29,
from utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:28,
from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.H:69,
from utgcns/libcns/unitigConsensus.C:77:
utgcns/libboost/boost/smart_ptr/detail/sp_counted_base.hpp:57:63: error: boost/smart_ptr/detail/sp_counted_base_gcc_ppc.hpp: No such file or directory
In file included from utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:30,
from utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:28,
from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.H:69,
from utgcns/libcns/unitigConsensus.C:77:
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:54: error: expected class-name before '{' token
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:81: error: 'get_deleter' declared as a 'virtual' field
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:81: error: expected ';' before '(' token
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:86: error: expected `;' before 'virtual'
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:128: error: expected class-name before '{' token
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:156: error: 'get_deleter' declared as a 'virtual' field
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:156: error: expected ';' before '(' token
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:161: error: expected `;' before 'virtual'
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:196: error: expected class-name before '{' token
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:252: error: 'get_deleter' declared as a 'virtual' field
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:252: error: expected ';' before '(' token
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:257: error: expected `;' before 'virtual'
In file included from utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:28,
from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.H:69,
from utgcns/libcns/unitigConsensus.C:77:
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:104: error: ISO C++ forbids declaration of 'sp_counted_base' with no type
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:104: error: expected ';' before '*' token
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:518: error: expected ';' before '(' token
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:523: error: expected `;' before 'void'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count()':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:114: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(Y*)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:121: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:130: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(P, D)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:154: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:167: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(P, boost::detail::sp_inplace_tag<D>)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:190: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:199: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(P, D, A)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:222: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:253: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:262: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(P, boost::detail::sp_inplace_tag<D>, A)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:306: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:337: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:346: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(std::auto_ptr<T>&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:395: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In destructor 'boost::detail::shared_count::~shared_count()':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:443: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In copy constructor 'boost::detail::shared_count::shared_count(const boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:449: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:449: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:454: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'boost::detail::shared_count& boost::detail::shared_count::operator=(const boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:474: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:474: error: 'tmp' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:474: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:476: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'void boost::detail::shared_count::swap(boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:488: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:488: error: 'tmp' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:488: error: 'class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:489: error: 'class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:489: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'long int boost::detail::shared_count::use_count() const':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:495: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'bool boost::detail::shared_count::empty() const':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:505: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In function 'bool boost::detail::operator==(const boost::detail::shared_count&, const boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:510: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:510: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In function 'bool boost::detail::operator<(const boost::detail::shared_count&, const boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:515: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:515: error: template argument 1 is invalid
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:515: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:515: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'void* boost::detail::shared_count::get_untyped_deleter() const':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:525: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: At global scope:
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:534: error: ISO C++ forbids declaration of 'sp_counted_base' with no type
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:534: error: expected ';' before '*' token
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::weak_count::weak_count()':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:544: error: class 'boost::detail::weak_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::weak_count::weak_count(const boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:551: error: class 'boost::detail::weak_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:551: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:556: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In copy constructor 'boost::detail::weak_count::weak_count(const boost::detail::weak_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:559: error: class 'boost::detail::weak_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:559: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:564: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In destructor 'boost::detail::weak_count::~weak_count()':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:583: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'boost::detail::weak_count& boost::detail::weak_count::operator=(const boost::detail::shared_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:591: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:591: error: 'tmp' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:591: error: 'const class boost::detail::shared_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:593: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'boost::detail::weak_count& boost::detail::weak_count::operator=(const boost::detail::weak_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:605: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:605: error: 'tmp' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:605: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:607: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'void boost::detail::weak_count::swap(boost::detail::weak_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:619: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:619: error: 'tmp' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:619: error: 'class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:620: error: 'class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:620: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'long int boost::detail::weak_count::use_count() const':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:626: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In member function 'bool boost::detail::weak_count::empty() const':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:631: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In function 'bool boost::detail::operator==(const boost::detail::weak_count&, const boost::detail::weak_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:636: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:636: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In function 'bool boost::detail::operator<(const boost::detail::weak_count&, const boost::detail::weak_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:641: error: 'sp_counted_base' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:641: error: template argument 1 is invalid
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:641: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:641: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(const boost::detail::weak_count&)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:645: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:645: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:650: error: 'pi_' was not declared in this scope
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp: In constructor 'boost::detail::shared_count::shared_count(const boost::detail::weak_count&, boost::detail::sp_nothrow_tag)':
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:656: error: class 'boost::detail::shared_count' does not have any field named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:656: error: 'const class boost::detail::weak_count' has no member named 'pi_'
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:661: error: 'pi_' was not declared in this scope
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.H:69,
from utgcns/libcns/unitigConsensus.C:77:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp: At global scope:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:695: error: expected ';' before '(' token
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:700: error: expected `;' before 'void'
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp: In function 'D* boost::detail::basic_get_deleter(const boost::shared_ptr<U>&)':
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:887: error: expected primary-expression before ')' token
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:887: error: there are no arguments to 'BOOST_SP_TYPEID' that depend on a template parameter, so a declaration of 'BOOST_SP_TYPEID' must be available
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:887: error: (if you use '-fpermissive', G++ will accept your code, but allowing the use of an undeclared name is deprecated)
utgcns/libcns/unitigConsensus.C: In member function 'bool unitigConsensus::alignFragment(bool)':
utgcns/libcns/unitigConsensus.C:1562: warning: deprecated conversion from string constant to 'char*'
utgcns/libcns/unitigConsensus.C:1660: warning: deprecated conversion from string constant to 'char*'
gmake[1]: *** [Makefile:708: /wrkdirs/usr/ports/biology/canu/work/canu-1.8/src/usr/local/FreeBSD-powerpc/obj/lib/libcanu.a/utgcns/libcns/unitigConsensus.o] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/canu/work/canu-1.8/src'
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/canu
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