build.log

sci-biology:shrimp-2.0.1:20110207-130448.log (text/plain), 8.00 KB, created by Paweł Hajdan, Jr. (RETIRED) on 2011-02-07 13:29:50 UTC

[32;01m * [39;49;00mPackage:    sci-biology/shrimp-2.0.1
[32;01m * [39;49;00mRepository: gentoo
[32;01m * [39;49;00mMaintainer: [e-mail] [e-mail]
[32;01m * [39;49;00mUSE:  elibc_glibc kernel_linux test userland_GNU x86
You should enable -g (or higher) for debugging!
>>> Unpacking source...
>>> Unpacking SHRiMP_2_0_1.src.tar.gz to /var/tmp/portage/sci-biology/shrimp-2.0.1/work
>>> Source unpacked in /var/tmp/portage/sci-biology/shrimp-2.0.1/work
>>> Preparing source in /var/tmp/portage/sci-biology/shrimp-2.0.1/work/SHRiMP_2_0_1 ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/shrimp-2.0.1/work/SHRiMP_2_0_1 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/shrimp-2.0.1/work/SHRiMP_2_0_1 ...
make -j3 'CXXFLAGS=-O2 -march=i686 -pipe -fopenmp' 'LDFLAGS=-Wl,--hash-style=gnu -Wl,-O1 -Wl,--as-needed' 
i686-pc-linux-gnu-g++ -O2 -march=i686 -pipe -fopenmp -D__STDC_FORMAT_MACROS -D__STDC_LIMIT_MACROS -c -o gmapper/gmapper.o gmapper/gmapper.c
i686-pc-linux-gnu-g++ -O2 -march=i686 -pipe -fopenmp -D__STDC_FORMAT_MACROS -D__STDC_LIMIT_MACROS -c -o common/fasta.o common/fasta.c
i686-pc-linux-gnu-g++ -O2 -march=i686 -pipe -fopenmp -D__STDC_FORMAT_MACROS -D__STDC_LIMIT_MACROS -c -o common/util.o common/util.c
i686-pc-linux-gnu-g++ -O2 -march=i686 -pipe -fopenmp -D__STDC_FORMAT_MACROS -D__STDC_LIMIT_MACROS -c -o common/bitmap.o common/bitmap.c
i686-pc-linux-gnu-g++ -O2 -march=i686 -pipe -fopenmp -D__STDC_FORMAT_MACROS -D__STDC_LIMIT_MACROS -c -o common/sw-vector.o common/sw-vector.c
In file included from common/sw-vector.c:15:
/usr/lib/gcc/i686-pc-linux-gnu/4.4.4/include/mmintrin.h:32:3: error: #error "MMX instruction set not enabled"
In file included from common/sw-vector.c:16:
/usr/lib/gcc/i686-pc-linux-gnu/4.4.4/include/xmmintrin.h:32:3: error: #error "SSE instruction set not enabled"
In file included from common/sw-vector.c:17:
/usr/lib/gcc/i686-pc-linux-gnu/4.4.4/include/emmintrin.h:32:3: error: #error "SSE2 instruction set not enabled"
common/sw-vector.c: In function 'int vect_sw_diff_gap(int8_t*, int, int8_t*, int, int8_t*, int, bool)':
common/sw-vector.c:70: error: '__m128i' was not declared in this scope
common/sw-vector.c:70: error: expected ';' before 'v_score'
common/sw-vector.c:71: error: expected ';' before 'v_a_gap_ext'
common/sw-vector.c:73: error: expected ';' before 'v_b_gap_ext'
common/sw-vector.c:75: error: expected ';' before 'v_a_gap'
common/sw-vector.c:76: error: expected ';' before 'v_last_nogap'
common/sw-vector.c:77: error: expected ';' before 'v_tmp'
common/sw-vector.c:89: error: 'v_score' was not declared in this scope
common/sw-vector.c:89: error: '_mm_setzero_si128' was not declared in this scope
common/sw-vector.c:90: error: 'v_zero' was not declared in this scope
common/sw-vector.c:91: error: 'v_match' was not declared in this scope
common/sw-vector.c:91: error: '_mm_set_epi16' was not declared in this scope
common/sw-vector.c:92: error: 'v_mismatch' was not declared in this scope
common/sw-vector.c:93: error: 'v_a_gap_ext' was not declared in this scope
common/sw-vector.c:94: error: 'v_a_gap_open_ext' was not declared in this scope
common/sw-vector.c:95: error: '_mm_add_epi16' was not declared in this scope
common/sw-vector.c:96: error: 'v_b_gap_ext' was not declared in this scope
common/sw-vector.c:97: error: 'v_b_gap_open_ext' was not declared in this scope
common/sw-vector.c:148: error: 'v_b_gap' was not declared in this scope
common/sw-vector.c:149: error: 'v_nogap' was not declared in this scope
common/sw-vector.c:150: error: 'v_seq_a' was not declared in this scope
common/sw-vector.c:151: error: 'v_seq_b' was not declared in this scope
common/sw-vector.c:153: error: 'v_a_gap' was not declared in this scope
common/sw-vector.c:154: error: '_mm_sub_epi16' was not declared in this scope
common/sw-vector.c:156: error: 'v_last_nogap' was not declared in this scope
common/sw-vector.c:157: error: 'v_prev_nogap' was not declared in this scope
common/sw-vector.c:160: error: '_mm_slli_si128' was not declared in this scope
common/sw-vector.c:161: error: '_mm_insert_epi16' was not declared in this scope
common/sw-vector.c:169: error: 'v_tmp' was not declared in this scope
common/sw-vector.c:171: error: '_mm_max_epi16' was not declared in this scope
common/sw-vector.c:178: error: '_mm_cmpeq_epi16' was not declared in this scope
common/sw-vector.c:179: error: '_mm_and_si128' was not declared in this scope
common/sw-vector.c:182: error: '_mm_or_si128' was not declared in this scope
common/sw-vector.c:192: error: '_mm_extract_epi16' was not declared in this scope
common/sw-vector.c:204: error: '_mm_extract_epi16' was not declared in this scope
common/sw-vector.c: In function 'int vect_sw_same_gap(int8_t*, int, int8_t*, int, int8_t*, int, bool)':
common/sw-vector.c:230: error: '__m128i' was not declared in this scope
common/sw-vector.c:230: error: expected ';' before 'v_score'
common/sw-vector.c:231: error: expected ';' before 'v_a_gap_ext'
common/sw-vector.c:235: error: expected ';' before 'v_a_gap'
common/sw-vector.c:236: error: expected ';' before 'v_last_nogap'
common/sw-vector.c:237: error: expected ';' before 'v_tmp'
common/sw-vector.c:249: error: 'v_score' was not declared in this scope
common/sw-vector.c:249: error: '_mm_setzero_si128' was not declared in this scope
common/sw-vector.c:250: error: 'v_zero' was not declared in this scope
common/sw-vector.c:251: error: 'v_match' was not declared in this scope
common/sw-vector.c:251: error: '_mm_set_epi16' was not declared in this scope
common/sw-vector.c:252: error: 'v_mismatch' was not declared in this scope
common/sw-vector.c:253: error: 'v_a_gap_ext' was not declared in this scope
common/sw-vector.c:254: error: 'v_a_gap_open_ext' was not declared in this scope
common/sw-vector.c:255: error: '_mm_add_epi16' was not declared in this scope
common/sw-vector.c:308: error: 'v_b_gap' was not declared in this scope
common/sw-vector.c:309: error: 'v_nogap' was not declared in this scope
common/sw-vector.c:310: error: 'v_seq_a' was not declared in this scope
common/sw-vector.c:311: error: 'v_seq_b' was not declared in this scope
common/sw-vector.c:313: error: 'v_a_gap' was not declared in this scope
common/sw-vector.c:314: error: '_mm_sub_epi16' was not declared in this scope
common/sw-vector.c:316: error: 'v_last_nogap' was not declared in this scope
common/sw-vector.c:317: error: 'v_prev_nogap' was not declared in this scope
common/sw-vector.c:320: error: '_mm_slli_si128' was not declared in this scope
common/sw-vector.c:321: error: '_mm_insert_epi16' was not declared in this scope
common/sw-vector.c:329: error: 'v_tmp' was not declared in this scope
common/sw-vector.c:331: error: '_mm_max_epi16' was not declared in this scope
common/sw-vector.c:338: error: '_mm_cmpeq_epi16' was not declared in this scope
common/sw-vector.c:339: error: '_mm_and_si128' was not declared in this scope
common/sw-vector.c:342: error: '_mm_or_si128' was not declared in this scope
common/sw-vector.c:352: error: '_mm_extract_epi16' was not declared in this scope
common/sw-vector.c:364: error: '_mm_extract_epi16' was not declared in this scope
make: *** [common/sw-vector.o] Error 1
make: *** Waiting for unfinished jobs....
emake failed
 [31;01m*[0m ERROR: sci-biology/shrimp-2.0.1 failed:
 [31;01m*[0m   (no error message)
 [31;01m*[0m 
 [31;01m*[0m Call stack:
 [31;01m*[0m     ebuild.sh, line  56:  Called src_compile
 [31;01m*[0m   environment, line 2642:  Called die
 [31;01m*[0m The specific snippet of code:
 [31;01m*[0m       emake CXXFLAGS="${CXXFLAGS}" LDFLAGS="${LDFLAGS}" || die
 [31;01m*[0m 
 [31;01m*[0m If you need support, post the output of 'emerge --info =sci-biology/shrimp-2.0.1',
 [31;01m*[0m the complete build log and the output of 'emerge -pqv =sci-biology/shrimp-2.0.1'.
 [31;01m*[0m The complete build log is located at '/var/log/emerge/sci-biology:shrimp-2.0.1:20110207-130448.log'.
 [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/sci-biology/shrimp-2.0.1/temp/environment'.
 [31;01m*[0m S: '/var/tmp/portage/sci-biology/shrimp-2.0.1/work/SHRiMP_2_0_1'