sci-biology:vcftools-0.1.12b:20160923-114649.log

sci-biology:vcftools-0.1.12b:20160923-114649.log (text/plain), 6.18 KB, created by Toralf Förster on 2016-09-23 18:15:16 UTC

 * Package:    sci-biology/vcftools-0.1.12b
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux lapack userland_GNU
 * FEATURES:   preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking vcftools_0.1.12b.tar.gz to /var/tmp/portage/sci-biology/vcftools-0.1.12b/work
>>> Source unpacked in /var/tmp/portage/sci-biology/vcftools-0.1.12b/work
>>> Preparing source in /var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b ...
 * Applying vcftools-0.1.12b-buildsystem.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b ...
make -j1 -C cpp VCFTOOLS_PCA=1 
make: Entering directory '/var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b/cpp'
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA vcftools.cpp -o vcftools.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  vcftools.cpp > vcftools.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA bcf_file.cpp -o bcf_file.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  bcf_file.cpp > bcf_file.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA vcf_file.cpp -o vcf_file.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  vcf_file.cpp > vcf_file.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA variant_file.cpp -o variant_file.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  variant_file.cpp > variant_file.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA header.cpp -o header.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  header.cpp > header.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA bcf_entry.cpp -o bcf_entry.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  bcf_entry.cpp > bcf_entry.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA vcf_entry.cpp -o vcf_entry.o
x86_64-pc-linux-gnu-g++ -MM -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA  vcf_entry.cpp > vcf_entry.d
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA entry.cpp -o entry.o
entry.cpp: In member function ‘void entry::make_typed_float_vector(std::vector<char>&, const string&, int)’:
entry.cpp:592:43: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  char missing[4] = {0x01, 0x00, 0x80, 0x7F};
                                           ^
entry.cpp:593:39: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  char end[4] = {0x02, 0x00, 0x80, 0x7F};
                                       ^
entry.cpp: In member function ‘void entry::make_typed_float_vector(std::vector<char>&, const std::vector<std::__cxx11::basic_string<char> >&, int)’:
entry.cpp:655:43: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  char missing[4] = {0x01, 0x00, 0x80, 0x7F};
                                           ^
entry.cpp:656:39: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  char end[4] = {0x02, 0x00, 0x80, 0x7F};
                                       ^
entry.cpp: In member function ‘bool entry::check_missing(unsigned int, unsigned int, const std::vector<char>&)’:
entry.cpp:870:56: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  static char missing_float[4] = {0x01, 0x00, 0x80, 0x7F};
                                                        ^
entry.cpp:872:43: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  static char missing_int2[2] = {0x00, 0x80};
                                           ^
entry.cpp:873:55: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  static char missing_int3[4] = {0x00, 0x00, 0x00, 0x80};
                                                       ^
entry.cpp: In member function ‘bool entry::check_end(unsigned int, unsigned int, const std::vector<char>&)’:
entry.cpp:929:52: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  static char end_float[4] = {0x02, 0x00, 0x80, 0x7F};
                                                    ^
entry.cpp:931:39: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  static char end_int2[2] = {0x01, 0x80};
                                       ^
entry.cpp:932:51: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  static char end_int3[4] = {0x01, 0x00, 0x00, 0x80};
                                                   ^
make: *** [Makefile:50: entry.o] Error 1
make: Leaving directory '/var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b/cpp'
 * ERROR: sci-biology/vcftools-0.1.12b::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/vcftools-0.1.12b::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/vcftools-0.1.12b::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-biology:vcftools-0.1.12b:20160923-114649.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/vcftools-0.1.12b/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/vcftools-0.1.12b/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b'
 * S: '/var/tmp/portage/sci-biology/vcftools-0.1.12b/work/vcftools_0.1.12b'