# Compilation failing **URL:** \ **Category:** Commands in mothur\ **Created:** [April 25, 2012, 12:32pm UTC](https://forum.mothur.org/t/compilation-failing/880 "2012-04-25T12:32:02Z")\ **Posts on this page:** 7\ **Page:** 1
**Author:** ![hyungz](https://avatars.discourse-cdn.com/v4/letter/h/a698b9/32.png) [@hyungz](https://forum.mothur.org/u/hyungz)\ **Post date:** [April 25, 2012, 12:32pm UTC](https://forum.mothur.org/t/compilation-failing/880/1 "2012-04-25T12:32:02Z")
Hi, I am attempting to compile mother 1.24.1 on a 64 bit SUSE linux (gcc version 4.1.2 ) and getting the following error, which is about uchime. cd uchime\_src && ./mk && mv uchime … && cd … addtargets2 cc1plus: error: unrecognized command line option “-msse2” cc1plus: error: unrecognized command line option “-mfpmath=sse” alignchime cc1plus: error: unrecognized command line option “-msse2” cc1plus: error: unrecognized command line option “-mfpmath=sse” alignchimel cc1plus: error: unrecognized command line option “-msse2” cc1plus: error: unrecognized command line option “-mfpmath=sse” . . . . strip: ‘uchime’: No such file ls: uchime: 그런 파일이나 ë””ë ‰í† ë¦¬ê°€ 없음 sum: uchime: 그런 파일이나 ë””ë ‰í† ë¦¬ê°€ 없음 make: \*\*\* [uchime] 오류 1 Thanks for any help. Hyungz. ---
**Author:** ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)\ **Post date:** [April 25, 2012, 3:24pm UTC](https://forum.mothur.org/t/compilation-failing/880/2 "2012-04-25T15:24:40Z")
You could change the following line in the makefile from: mothur : fortranSource $(OBJECTS) uchime $(CXX) $(LDFLAGS) $(TARGET\_ARCH) -o $@ $(OBJECTS) $(LIBS) to mothur : fortranSource $(OBJECTS) $(CXX) $(LDFLAGS) $(TARGET\_ARCH) -o $@ $(OBJECTS) $(LIBS) Then mothur will build, but you won’t have the uchime executable. The uchime executable is included in the executable distribution of mothur, [http://www.mothur.org/wiki/Download\_mothur](http://www.mothur.org/wiki/Download_mothur). ---
**Author:** ![hyungz](https://avatars.discourse-cdn.com/v4/letter/h/a698b9/32.png) [@hyungz](https://forum.mothur.org/u/hyungz)\ **Post date:** [April 25, 2012, 11:47pm UTC](https://forum.mothur.org/t/compilation-failing/880/3 "2012-04-25T23:47:32Z")
Thank you very much, Westcott. I have one more question. Because the SUSE linux is 64 bit, I changed 64BIT\_VERSION ?= no #if you are a mac user use the following line TARGET\_ARCH += -arch x86\_64 #if you are a linux user use the following line #CXXFLAGS += -mtune=native -march=native -m64 to 64BIT\_VERSION ?= yes #if you are a mac user use the following line #TARGET\_ARCH += -arch x86\_64 #if you are a linux user use the following line CXXFLAGS += -mtune=native -march=native -m64 in makefile and obtained following error. gfortran -c -m64 \*.f f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” f951: error: unrecognized command line option “-m64” make: \*\*\* [fortranSource] 오류 1 Thank you for your concern. hyungz. ---
**Author:** ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)\ **Post date:** [April 27, 2012, 12:53pm UTC](https://forum.mothur.org/t/compilation-failing/880/4 "2012-04-27T12:53:42Z")
Have you tried running the executable version of mothur instead of building from source? ---
**Author:** ![hyungz](https://avatars.discourse-cdn.com/v4/letter/h/a698b9/32.png) [@hyungz](https://forum.mothur.org/u/hyungz)\ **Post date:** [April 27, 2012, 3:24pm UTC](https://forum.mothur.org/t/compilation-failing/880/5 "2012-04-27T15:24:17Z")
I tried already, but it did not work. The executable version was runned on Redhat linux, which has been installed in anonther server computer, but it was not runned on SUSE linux, I don’t know why. hyungz ---
**Author:** ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)\ **Post date:** [April 27, 2012, 3:53pm UTC](https://forum.mothur.org/t/compilation-failing/880/6 "2012-04-27T15:53:13Z")
I am not familiar with the specific differences between SUSE Linux and CentOS Linux. You could try building the 32bit version? ---
**Author:** ![hyungz](https://avatars.discourse-cdn.com/v4/letter/h/a698b9/32.png) [@hyungz](https://forum.mothur.org/u/hyungz)\ **Post date:** [April 28, 2012, 2:34am UTC](https://forum.mothur.org/t/compilation-failing/880/7 "2012-04-28T02:34:50Z")
Thank you, Westcott, I could compile and install mothur from the source code with 32 bit version, and it works now. But when I copies and pasted uchim executable and ran uchime, I obtained the following massage. mothur \> chimera.uchime(fasta=chim1.fasta, reference=self) uchime by Robert C. Edgar http://drive5.com/uchime This code is donated to the public domain. Checking sequences from chim1.fasta … No namesfile given, running unique.seqs command to generate one. /\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*/ Running command: unique.seqs(fasta=chim1.fasta) [WARNING]: This command can take a namefile and you did not provide one. The current namefile is chim1.names which seems to match chim1.fasta. 1000 643 2000 1274 3000 1974 4000 2734 4164 2882 Output File Names: chim1.unique.fasta chim1.names /\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*\*/ sh: …/…/…/mothur/Mothur.source/uchime: 허가 거부됨 (This means “not permitted”) It took 0 secs to check 1 sequences. 0 chimeras were found. Output File Names: chim1.uchime.chimera chim1.uchime.accnos