[Debian-med-packaging] Bug#648255: mothur: FTBFS: cc1plus: error: unrecognized command line option '-msse2'

[Nobuhiro Iwamatsu]

Source: mothur
Version: 1.22.1-1
Severity: serious
Justification: fails to build from source
Tags: patch

Hi,

mothur FTBFS on the architecture except x86.

  https://buildd.debian.org/status/package.php?p=mothur
  http://buildd.debian-ports.org/status/package.php?p=mothur

-----
g++ -O3 -DBIT_VERSION -DRELEASE_DATE="\"10/24/2011\""
-DVERSION="\"1.22.1\"" -I.   -c -o whittaker.o whittaker.cpp
cc    -c -o fisher2.o fisher2.c
cc    -c -o metastats2.o metastats2.c
cd uchime_src && ./mk && mv uchime .. && cd ..
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
./mk: line 9: /dev/tty: No such device or address
cc1plus: error: unrecognized command line option '-msse2'
cc1plus: error: unrecognized command line option '-mfpmath=sse'
g++: error: addtargets2.o: No such file or directory
g++: error: alignchime.o: No such file or directory
g++: error: alignchimel.o: No such file or directory
g++: error: alnparams.o: No such file or directory
g++: error: alpha.o: No such file or directory
g++: error: alpha2.o: No such file or directory
g++: error: fractid.o: No such file or directory
g++: error: getparents.o: No such file or directory
g++: error: globalalign2.o: No such file or directory
g++: error: make3way.o: No such file or directory
g++: error: mx.o: No such file or directory
g++: error: myutils.o: No such file or directory
g++: error: path.o: No such file or directory
g++: error: searchchime.o: No such file or directory
g++: error: seqdb.o: No such file or directory
g++: error: setnucmx.o: No such file or directory
g++: error: sfasta.o: No such file or directory
g++: error: tracebackbit.o: No such file or directory
g++: error: uchime_main.o: No such file or directory
g++: error: usort.o: No such file or directory
g++: error: viterbifast.o: No such file or directory
g++: error: writechhit.o: No such file or directory
g++: fatal error: no input files
compilation terminated.
strip: 'uchime': No such file
ls: cannot access uchime: No such file or directory
sum: uchime: No such file or directory
make[2]: *** [uchime] Error 1
-----

I made a patch which revise this problem.
Could you apply this patch?

Best regards,
 Nobuhiro

-- 
Nobuhiro Iwamatsu
   iwamatsu at {nigauri.org / debian.org}
   GPG ID: 40AD1FA6
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