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:     y...@freebsd.org
Last committer: y...@freebsd.org
Ident:          $FreeBSD: head/biology/mothur/Makefile 513838 2019-10-05 
17:04:42Z yuri $
Log URL:        
http://beefy12.nyi.freebsd.org/data/head-armv7-default/p529018_s359264/logs/mothur-1.43.0.log
Build URL:      
http://beefy12.nyi.freebsd.org/build.html?mastername=head-armv7-default&build=p529018_s359264
Log:

=>> Building biology/mothur
build started at Wed Mar 25 20:43:23 UTC 2020
port directory: /usr/ports/biology/mothur
package name: mothur-1.43.0
building for: FreeBSD head-armv7-default-job-11 13.0-CURRENT FreeBSD 
13.0-CURRENT 1300085 arm
maintained by: y...@freebsd.org
Makefile ident:      $FreeBSD: head/biology/mothur/Makefile 513838 2019-10-05 
17:04:42Z yuri $
Poudriere version: 3.2.8-5-gc81843e5
Host OSVERSION: 1300076
Jail OSVERSION: 1300085
Job Id: 11




!!! Jail is newer than host. (Jail: 1300085, Host: 1300076) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!



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y...@freebsd.org
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--CONFIGURE_ARGS--

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--CONFIGURE_ENV--
MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/mothur/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/mothur/work  
HOME=/wrkdirs/usr/ports/biology/mothur/work TMPDIR="/tmp" 
PATH=/wrkdirs/usr/ports/biology/mothur/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
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CPPFLAGS="-I/usr/local/include -isystem /usr/local/include"  LDFLAGS=" 
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DISTDIR=/distfiles
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MACHINE_ARCH=armv7
ARCH=${MACHINE_ARCH}
#### /usr/local/etc/poudriere.d/make.conf ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure.  It currently retries the same
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=======================<phase: check-sanity   >============================
===>  License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   mothur-1.43.0 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.13.2.txz
[head-armv7-default-job-11] Installing pkg-1.13.2...
[head-armv7-default-job-11] Extracting pkg-1.13.2: .......... done
===>   mothur-1.43.0 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of mothur-1.43.0
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by mothur-1.43.0 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by mothur-1.43.0 for building
=> SHA256 Checksum OK for mothur-mothur-v1.43.0_GH0.tar.gz.
===========================================================================
<snip>
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/treemap.o source/datastructures/treemap.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/counttable.o source/datastructures/counttable.cpp
source/datastructures/counttable.cpp:1095:1: warning: non-void function does 
not return a value in all control paths [-Wreturn-type]
}
^
1 warning generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sharedrabundvectors.o 
source/datastructures/sharedrabundvectors.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/tree.o source/datastructures/tree.cpp
source/datastructures/tree.cpp:481:1: warning: non-void function does not 
return a value in all control paths [-Wreturn-type]
}
^
1 warning generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/oligos.o source/datastructures/oligos.cpp
source/datastructures/oligos.cpp:254:35: warning: result of comparison of 
constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                                                if (c == 10 || c == 13 || c == 
-1){     break;  }
                                                                          ~ ^  
~~
source/datastructures/oligos.cpp:290:35: warning: result of comparison of 
constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                                                if (c == 10 || c == 13 || c == 
-1){     break;  }
                                                                          ~ ^  
~~
source/datastructures/oligos.cpp:324:35: warning: result of comparison of 
constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                                                if (c == 10 || c == 13 || c == 
-1){     break;  }
                                                                          ~ ^  
~~
3 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sequencecountparser.o 
source/datastructures/sequencecountparser.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/alignment.o source/datastructures/alignment.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sparsedistancematrix.o 
source/datastructures/sparsedistancematrix.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sequenceparser.o 
source/datastructures/sequenceparser.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/fullmatrix.o source/datastructures/fullmatrix.cpp
source/datastructures/fullmatrix.cpp:37:30: warning: result of comparison of 
constant -1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                while((d=filehandle.get()) != EOF){
                      ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
1 warning generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/distancedb.o source/datastructures/distancedb.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sequencedb.o source/datastructures/sequencedb.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/qualityscores.o 
source/datastructures/qualityscores.cpp
source/datastructures/qualityscores.cpp:242:63: warning: result of comparison 
of constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
            if((letter == '\r') || (letter == '\n') || letter == -1){
                                                       ~~~~~~ ^  ~~
1 warning generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sharedlistvector.o 
source/datastructures/sharedlistvector.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/treenode.o source/datastructures/treenode.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sparsematrix.o 
source/datastructures/sparsematrix.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/alignmentdb.o source/datastructures/alignmentdb.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/fastamap.o source/datastructures/fastamap.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sharedordervector.o 
source/datastructures/sharedordervector.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/optimatrix.o source/datastructures/optimatrix.cpp
source/datastructures/optimatrix.cpp:54:36: warning: result of comparison of 
constant -1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
        while((d=fileHandle.get()) != EOF){
              ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
1 warning generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/filefile.o source/datastructures/filefile.cpp
source/datastructures/filefile.cpp:53:1: warning: '/*' within block comment 
[-Wcomment]
/*
^
1 warning generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/groupmap.o source/datastructures/groupmap.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/flowdata.o source/datastructures/flowdata.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/kmer.o source/datastructures/kmer.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/suffixnodes.o source/datastructures/suffixnodes.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sequence.o source/datastructures/sequence.cpp
source/datastructures/sequence.cpp:205:45: warning: result of comparison of 
constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                if (c == 10 || c == 13 || c == -1){   break;    }
                                          ~ ^  ~~
source/datastructures/sequence.cpp:368:54: warning: result of comparison of 
constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                        if((letter == '\r') || (letter == '\n') || letter == 
-1){
                                                                   ~~~~~~ ^  ~~
source/datastructures/sequence.cpp:450:54: warning: result of comparison of 
constant -1 with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                        if((letter == '\r') || (letter == '\n') || letter == 
-1){  
                                                                   ~~~~~~ ^  ~~
3 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/suffixtree.o source/datastructures/suffixtree.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/kmeralign.o source/datastructures/kmeralign.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/optidata.o source/datastructures/optidata.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/optirefmatrix.o 
source/datastructures/optirefmatrix.cpp
source/datastructures/optirefmatrix.cpp:812:36: warning: result of comparison 
of constant -1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
        while((d=fileHandle.get()) != EOF){
              ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/datastructures/optirefmatrix.cpp:887:28: warning: result of comparison 
of constant -1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
        while((d=in.get()) != EOF){
              ~~~~~~~~~~~~ ^  ~~~
2 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/sharedrabundfloatvector.o 
source/datastructures/sharedrabundfloatvector.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/ordervector.o source/datastructures/ordervector.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/optiblastmatrix.o 
source/datastructures/optiblastmatrix.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/fastqread.o source/datastructures/fastqread.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/datastructures/listvector.o source/datastructures/listvector.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/metastats/mothurmetastats.o source/metastats/mothurmetastats.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/metastats/mothurfisher.o source/metastats/mothurfisher.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/randomforest/forest.o source/randomforest/forest.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/randomforest/randomforest.o source/randomforest/randomforest.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/randomforest/abstractdecisiontree.o 
source/randomforest/abstractdecisiontree.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/randomforest/decisiontree.o source/randomforest/decisiontree.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/randomforest/rftreenode.o source/randomforest/rftreenode.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/randomforest/regularizeddecisiontree.o 
source/randomforest/regularizeddecisiontree.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/readphylip.o source/read/readphylip.cpp
source/read/readphylip.cpp:58:52: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                        while((d=fileHandle.get()) != EOF){
                              ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/readphylip.cpp:227:36: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
        while((d=fileHandle.get()) != EOF){
              ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
2 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/formatphylip.o source/read/formatphylip.cpp
source/read/formatphylip.cpp:43:31: warning: result of comparison of constant 
-1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                        while((d=fileHandle.get()) != EOF){
                              ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/formatphylip.cpp:270:36: warning: result of comparison of constant 
-1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
        while((d=fileHandle.get()) != EOF){
              ~~~~~~~~~~~~~~~~~~~~ ^  ~~~
2 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/readtree.o source/read/readtree.cpp
source/read/readtree.cpp:43:8: warning: result of comparison of constant -1 
with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                if(d == EOF){ m->mothurOut("Error: Input file ends prematurely, 
expecting a " + name + "\n"); exit(1); }
                   ~ ^  ~~~
source/read/readtree.cpp:63:8: warning: result of comparison of constant -1 
with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                if(d == EOF){ m->mothurOut("Error: Input file ends prematurely, 
expecting a left parenthesis\n"); exit(1); }
                   ~ ^  ~~~
source/read/readtree.cpp:107:34: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                        while((c = filehandle.peek()) != EOF) {
                              ~~~~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/readtree.cpp:109:36: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                                while ((c = filehandle.peek()) != EOF) {
                                       ~~~~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/readtree.cpp:136:34: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                        while((c = filehandle.peek()) != EOF) {
                              ~~~~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/readtree.cpp:139:36: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                                while ((c = filehandle.peek()) != EOF) {
                                       ~~~~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/readtree.cpp:148:72: warning: result of comparison of constant -1 
with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                                while (((c = filehandle.get()) != '(') && ((c = 
filehandle.peek()) != EOF) ) {;}
                                                                           
~~~~~~~~~~~~~~~~~~~~~~~ ^  ~~~
source/read/readtree.cpp:150:11: warning: result of comparison of constant -1 
with expression of type 'char' is always false 
[-Wtautological-constant-out-of-range-compare]
                                if (c == EOF ) { break; }
                                    ~ ^  ~~~
8 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/treereader.o source/read/treereader.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/readcluster.o source/read/readcluster.cpp
source/read/readcluster.cpp:103:22: warning: result of comparison of constant 
-1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                while((d=in.get()) != EOF){
                      ~~~~~~~~~~~~ ^  ~~~
source/read/readcluster.cpp:281:22: warning: result of comparison of constant 
-1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                while((d=in.get()) != EOF){
                      ~~~~~~~~~~~~ ^  ~~~
2 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/readcolumn.o source/read/readcolumn.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/readphylipvector.o source/read/readphylipvector.cpp
source/read/readphylipvector.cpp:44:22: warning: result of comparison of 
constant -1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                while((d=in.get()) != EOF){
                      ~~~~~~~~~~~~ ^  ~~~
source/read/readphylipvector.cpp:127:22: warning: result of comparison of 
constant -1 with expression of type 'char' is always true 
[-Wtautological-constant-out-of-range-compare]
                while((d=in.get()) != EOF){
                      ~~~~~~~~~~~~ ^  ~~~
2 warnings generated.
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/splitmatrix.o source/read/splitmatrix.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/formatcolumn.o source/read/formatcolumn.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/read/readblast.o source/read/readblast.cpp
/nxb-bin/usr/bin/c++ -O2 -pipe -fstack-protector-strong -isystem 
/usr/local/include -fno-strict-aliasing  -isystem /usr/local/include  -O3 
-std=c++11 -pthread -DVERSION="\"1.43.0\"" -DUSE_READLINE -I.  -I source/  -I 
source/calculators/  -I source/chimera/  -I source/classifier/  -I 
source/clearcut/  -I source/commands/  -I source/communitytype/  -I 
source/datastructures/  -I source/metastats/  -I source/randomforest/  -I 
source/read/  -I source/svm/ -I/usr/local/include -isystem /usr/local/include  
-c -o source/svm/svm.o source/svm/svm.cpp
cd source/uchime_src && export CXX=/nxb-bin/usr/bin/c++ && ./mk && mv uchime 
../../ && cd ..
addtargets2
alignchime
alignchimel
alnparams
alpha
alpha2
fractid
getparents
globalalign2
make3way
mx
myutils
path
searchchime
seqdb
setnucmx
sfasta
tracebackbit
uchime_main
uchime_main.cpp:186:19: warning: binding dereferenced null pointer to reference 
has undefined behavior [-Wnull-dereference]
                AlnParams &AP = *(AlnParams *) 0;
                                ^~~~~~~~~~~~~~~~
uchime_main.cpp:187:23: warning: binding dereferenced null pointer to reference 
has undefined behavior [-Wnull-dereference]
                AlnHeuristics &AH = *(AlnHeuristics *) 0;
                                    ^~~~~~~~~~~~~~~~~~~~
uchime_main.cpp:188:19: warning: binding dereferenced null pointer to reference 
has undefined behavior [-Wnull-dereference]
                HSPFinder &HF = *(HSPFinder *) 0;
                                ^~~~~~~~~~~~~~~~
3 warnings generated.
usort
viterbifast
writechhit
-rwxr-xr-x  1 root  wheel   433K Mar 25 21:22 uchime
qemu: uncaught target signal 11 (Segmentation fault) - core dumped
./mk: line 27: 51749 Segmentation fault      sum uchime
gmake[1]: *** [Makefile:119: uchime] Error 139
gmake[1]: Leaving directory 
'/wrkdirs/usr/ports/biology/mothur/work/mothur-1.43.0'
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/mothur
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