[Debian-med-packaging] Bug#868455: libbiod: FTBFS with new ldc?

Sat Jul 15 14:44:49 UTC 2017

Source: libbiod
Severity: serious
Version: 0.1.0-3

Hello, seems the latest changes in unstable somewhat broke libbiod linker.

ldc2  -of biod_test 'biod_test at exe/test_unittests.d.o' 'biod_test at exe/bio_bam_utils_value.d.o' 'biod_test at exe/bio_bam_utils_samheadermerger.d.o' 'biod_test at exe/bio_bam_utils_array.d.o' 'biod_test at exe/bio_bam_utils_graph.d.o' 'biod_test at exe/bio_bam_pileup.d.o' 'biod_test at exe/bio_bam_readrange.d.o' 'biod_test at exe/bio_bam_reader.d.o' 'biod_test at exe/bio_bam_thirdparty_msgpack.d.o' 'biod_test at exe/bio_bam_baifile.d.o' 'biod_test at exe/bio_bam_iontorrent_flowcall.d.o' 'biod_test at exe/bio_bam_iontorrent_flowindex.d.o' 'biod_test at exe/bio_bam_splitter.d.o' 'biod_test at exe/bio_bam_abstractreader.d.o' 'biod_test at exe/bio_bam_bai_indexing.d.o' 'biod_test at exe/bio_bam_bai_bin.d.o' 'biod_test at exe/bio_bam_multireader.d.o' 'biod_test at exe/bio_bam_reference.d.o' 'biod_test at exe/bio_bam_md_operation.d.o' 'biod_test at exe/bio_bam_md_core.d.o' 'biod_test at exe/bio_bam_md_parse.d.o' 'biod_test at exe/bio_bam_md_reconstruct.d.o' 'biod_test at exe/bio_bam_tagvalue.d.o' 'biod_test at exe/bio_bam_validation_alignment.d.o' 'biod_test at exe/bio_bam_validation_samheader.d.o' 'biod_test at exe/bio_bam_region.d.o' 'biod_test at exe/bio_bam_randomaccessmanager.d.o' 'biod_test at exe/bio_bam_referenceinfo.d.o' 'biod_test at exe/bio_bam_constants.d.o' 'biod_test at exe/bio_bam_snpcallers_maq.d.o' 'biod_test at exe/bio_bam_snpcallers_simple.d.o' 'biod_test at exe/bio_bam_read.d.o' 'biod_test at exe/bio_bam_writer.d.o' 'biod_test at exe/bio_bam_baseinfo.d.o' 'biod_test at exe/bio_maf_reader.d.o' 'biod_test at exe/bio_maf_parser.d.o' 'biod_test at exe/bio_maf_block.d.o' 'biod_test at exe/bio_core_utils_memoize.d.o' 'biod_test at exe/bio_core_utils_algo.d.o' 'biod_test at exe/bio_core_utils_stream.d.o' 'biod_test at exe/bio_core_utils_zlib.d.o' 'biod_test at exe/bio_core_utils_tmpfile.d.o' 'biod_test at exe/bio_core_utils_roundbuf.d.o' 'biod_test at exe/bio_core_utils_format.d.o' 'biod_test at exe/bio_core_utils_bylinefast.d.o' 'biod_test at exe/bio_core_utils_range.d.o' 'biod_test at exe/bio_core_utils_switchendianness.d.o' 'biod_test at exe/bio_core_utils_outbuffer.d.o' 'biod_test at exe/bio_core_genotype.d.o' 'biod_test at exe/bio_core_fasta.d.o' 'biod_test at exe/bio_core_base.d.o' 'biod_test at exe/bio_core_kmer.d.o' 'biod_test at exe/bio_core_region.d.o' 'biod_test at exe/bio_core_tinymap.d.o' 'biod_test at exe/bio_core_sequence.d.o' 'biod_test at exe/bio_core_bgzf_outputstream.d.o' 'biod_test at exe/bio_core_bgzf_chunk.d.o' 'biod_test at exe/bio_core_bgzf_inputstream.d.o' 'biod_test at exe/bio_core_bgzf_constants.d.o' 'biod_test at exe/bio_core_bgzf_block.d.o' 'biod_test at exe/bio_core_bgzf_virtualoffset.d.o' 'biod_test at exe/bio_core_bgzf_compress.d.o' 'biod_test at exe/bio_core_call.d.o' 'biod_test at exe/bio_sff_utils_roundup.d.o' 'biod_test at exe/bio_sff_index.d.o' 'biod_test at exe/bio_sff_readrange.d.o' 'biod_test at exe/bio_sff_reader.d.o' 'biod_test at exe/bio_sff_constants.d.o' 'biod_test at exe/bio_sff_read.d.o' 'biod_test at exe/bio_sff_writer.d.o' 'biod_test at exe/bio_sam_utils_fastrecordparser.d.o' 'biod_test at exe/bio_sam_utils_recordparser.d.o' 'biod_test at exe/bio_sam_reader.d.o' 'biod_test at exe/bio_sam_header.d.o' -O -g -release -L-z -Lrelro -L-z -Lnow -L-lundead -L-lz  
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi':
(.text._D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi[_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi]+0x11f2): undefined reference to `_D3std3utf7toUTF16FNaNfxAaZAyu'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi':
(.text._D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi[_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi]+0x1213): undefined reference to `_D3std3utf7toUTF32FNaNfxAaZAyw'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv]+0x540): undefined reference to `_D3std3utf6toUTF8FNaNfxAuZAya'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv]+0x5bf): undefined reference to `_D3std3utf6toUTF8FNaNfxAwZAya'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv]+0x11a3): undefined reference to `_D3std3utf6toUTF8FNaNfxAwZAya'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv]+0x128a): undefined reference to `_D3std3utf6toUTF8FNaNfxAuZAya'
collect2: error: ld returned 1 exit status

Buildlog attached

G.
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[0;34mD: cmdline: build --distribution sid --buildresult /home/locutus/pbuilder/sid_result --basetgz /home/locutus/pbuilder/sid-base.tgz --logfile /home/locutus/pbuilder/sid_result/libbiod_0.1.0-3_amd64.build --mirror http://httpredir.debian.org/debian --debootstrapopts --keyring=/usr/share/keyrings/debian-archive-keyring.gpg --aptcache /home/locutus/pbuilder/aptcache/debian --components main contrib non-free libbiod_0.1.0-3.dsc[0m
[0mI: using fakeroot in build.[0m
[0mI: pbuilder: network access will be disabled during build[0m
[0mI: Current time: Sat Jul 15 16:36:52 CEST 2017[0m
[0mI: pbuilder-time-stamp: 1500129412[0m
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gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/home/locutus/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Mon Apr 10 08:09:46 2017 UTC
gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv:                issuer "tille at debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./libbiod_0.1.0-3.dsc
dpkg-source: info: extracting libbiod in libbiod-0.1.0
dpkg-source: info: unpacking libbiod_0.1.0.orig.tar.gz
dpkg-source: info: unpacking libbiod_0.1.0-3.debian.tar.xz
dpkg-source: info: applying 0002-improved-big-endian-support.patch
dpkg-source: info: applying 0003-include-the-AH-header-tag-to-SQ-lines.patch
dpkg-source: info: applying 0004-use-consistent-naming-21.patch
dpkg-source: info: applying 0005-fixes-lomereiter-sambamba-244.patch
dpkg-source: info: applying 0006-switch-to-undead.stream.patch
dpkg-source: info: applying 0007-std.c-core.stdc.patch
dpkg-source: info: applying 0008-fix-deprecations-and-some-warnings.patch
dpkg-source: info: applying 0009-fix-toHash-signature.patch
dpkg-source: info: applying 0011-better-.travis.yml-uses-dub-test-and-tests-ldc.patch
dpkg-source: info: applying 0013-fix-toJSON-usage-for-new-and-old-compilers.patch
dpkg-source: info: applying 0014-Add-compareCoordinatesAndStrand-to-fix-sorting-test-.patch
dpkg-source: info: applying 0015-Add-Meson-build-definition.patch
dpkg-source: info: applying 0016-fix-type-conversion.patch
[0mI: Installing the build-deps[0m
 -> Attempting to parse the build-deps
 -> Considering build-depdebhelper (>= 10)
   -> Trying to add debhelper
 -> Considering build-dep ldc
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 -> Considering build-dep meson (>= 0.38)
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   -> Trying to add pkg-config
 -> Considering build-dep libundead-dev
   -> Trying to add libundead-dev
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 -> Installing  debhelper ldc meson pkg-config libundead-dev zlib1g-dev
Reading package lists...
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Recommended packages:
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The following NEW packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils debhelper
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  groff-base intltool-debian ldc libarchive-zip-perl libbsd0 libconfig9
  libcroco3 libedit2 libexpat1 libfile-stripnondeterminism-perl libglib2.0-0
  libicu57 libllvm3.9 libmagic-mgc libmagic1 libmpdec2 libncurses5
  libphobos2-ldc-dev libphobos2-ldc72 libpipeline1 libpython3-stdlib
  libpython3.5-minimal libpython3.5-stdlib libreadline7 libsigsegv2
  libsqlite3-0 libssl1.1 libtimedate-perl libtool libundead-dev libxml2 m4
  man-db meson mime-support ninja-build pkg-config po-debconf python3
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[0mI: Building the package[0m
[0mI: Running cd /build/libbiod-0.1.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin" HOME="/nonexistent" dpkg-buildpackage -us -uc -rfakeroot[0m
dpkg-buildpackage: info: source package libbiod
dpkg-buildpackage: info: source version 0.1.0-3
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille at debian.org>
 dpkg-source --before-build libbiod-0.1.0
dpkg-buildpackage: info: host architecture amd64
 fakeroot debian/rules clean
dh clean
   dh_testdir
   dh_auto_clean
   dh_autoreconf_clean
   debian/rules override_dh_clean
make[1]: Entering directory '/build/libbiod-0.1.0'
rm -rf build/
dh_clean
make[1]: Leaving directory '/build/libbiod-0.1.0'
 dpkg-source -b libbiod-0.1.0
dpkg-source: info: using source format '3.0 (quilt)'
dpkg-source: info: building libbiod using existing ./libbiod_0.1.0.orig.tar.gz
dpkg-source: info: building libbiod in libbiod_0.1.0-3.debian.tar.xz
dpkg-source: info: building libbiod in libbiod_0.1.0-3.dsc
 debian/rules build
dh build
   dh_testdir
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make[1]: Entering directory '/build/libbiod-0.1.0'
mkdir build
(cd build && meson --prefix=/usr --buildtype=plain ..)
WARNING: You are using 'ANSI_X3.4-1968' which is not a a Unicode-compatible locale.
WARNING: You might see errors if you use UTF-8 strings as filenames, as strings, or as file contents.
WARNING: Please switch to a UTF-8 locale for your platform.
The Meson build system
Version: 0.41.1
Source dir: /build/libbiod-0.1.0
Build dir: /build/libbiod-0.1.0/build
Build type: native build
Project name: BioD
Native d compiler: ldc2 (llvm 1.2.0)
Appending DFLAGS from environment: '-O -g -release'
Appending LDFLAGS from environment: '-Wl,-z,relro -Wl,-z,now'
Build machine cpu family: x86_64
Build machine cpu: x86_64
Found pkg-config: /usr/bin/pkg-config (0.29)
Native dependency undead found: YES 1.0.6
Native dependency zlib found: YES 1.2.8
Build targets in project: 2
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ninja -Cbuild -v
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[1/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_utils_array.d.o' -c ../bio/bam/utils/array.d
[2/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_utils_graph.d.o' -c ../bio/bam/utils/graph.d
[3/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_iontorrent_flowindex.d.o' -c ../bio/bam/iontorrent/flowindex.d
[4/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_utils_value.d.o' -c ../bio/bam/utils/value.d
[5/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_readrange.d.o' -c ../bio/bam/readrange.d
[6/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_pileup.d.o' -c ../bio/bam/pileup.d
[7/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_thirdparty_msgpack.d.o' -c ../bio/bam/thirdparty/msgpack.d
[8/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_bai_bin.d.o' -c ../bio/bam/bai/bin.d
[9/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_splitter.d.o' -c ../bio/bam/splitter.d
[10/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_abstractreader.d.o' -c ../bio/bam/abstractreader.d
[11/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_baifile.d.o' -c ../bio/bam/baifile.d
[12/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_zlib.d.o' -c ../bio/core/utils/zlib.d
[13/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_md_core.d.o' -c ../bio/bam/md/core.d
[14/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_md_reconstruct.d.o' -c ../bio/bam/md/reconstruct.d
[15/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_reference.d.o' -c ../bio/bam/reference.d
[16/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_md_parse.d.o' -c ../bio/bam/md/parse.d
[17/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_region.d.o' -c ../bio/bam/region.d
[18/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_bai_indexing.d.o' -c ../bio/bam/bai/indexing.d
[19/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_validation_samheader.d.o' -c ../bio/bam/validation/samheader.d
[20/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_constants.d.o' -c ../bio/bam/constants.d
[21/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_md_operation.d.o' -c ../bio/bam/md/operation.d
[22/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_referenceinfo.d.o' -c ../bio/bam/referenceinfo.d
[23/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_reader.d.o' -c ../bio/bam/reader.d
[24/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_snpcallers_simple.d.o' -c ../bio/bam/snpcallers/simple.d
[25/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_iontorrent_flowcall.d.o' -c ../bio/bam/iontorrent/flowcall.d
[26/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_snpcallers_maq.d.o' -c ../bio/bam/snpcallers/maq.d
[27/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_writer.d.o' -c ../bio/bam/writer.d
[28/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_readrange.d.o' -c ../bio/sff/readrange.d
[29/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_maf_block.d.o' -c ../bio/maf/block.d
[30/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_baseinfo.d.o' -c ../bio/bam/baseinfo.d
[31/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_memoize.d.o' -c ../bio/core/utils/memoize.d
[32/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_utils_samheadermerger.d.o' -c ../bio/bam/utils/samheadermerger.d
[33/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_algo.d.o' -c ../bio/core/utils/algo.d
[34/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_maf_reader.d.o' -c ../bio/maf/reader.d
[35/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_stream.d.o' -c ../bio/core/utils/stream.d
[36/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_roundbuf.d.o' -c ../bio/core/utils/roundbuf.d
[37/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_randomaccessmanager.d.o' -c ../bio/bam/randomaccessmanager.d
[38/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_format.d.o' -c ../bio/core/utils/format.d
[39/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_tmpfile.d.o' -c ../bio/core/utils/tmpfile.d
[40/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_switchendianness.d.o' -c ../bio/core/utils/switchendianness.d
[41/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_range.d.o' -c ../bio/core/utils/range.d
[42/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_bylinefast.d.o' -c ../bio/core/utils/bylinefast.d
[43/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_validation_alignment.d.o' -c ../bio/bam/validation/alignment.d
[44/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_genotype.d.o' -c ../bio/core/genotype.d
[45/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_utils_outbuffer.d.o' -c ../bio/core/utils/outbuffer.d
[46/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_kmer.d.o' -c ../bio/core/kmer.d
[47/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_base.d.o' -c ../bio/core/base.d
[48/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_region.d.o' -c ../bio/core/region.d
[49/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_tinymap.d.o' -c ../bio/core/tinymap.d
[50/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_chunk.d.o' -c ../bio/core/bgzf/chunk.d
[51/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_tagvalue.d.o' -c ../bio/bam/tagvalue.d
[52/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_constants.d.o' -c ../bio/core/bgzf/constants.d
[53/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_maf_parser.d.o' -c ../bio/maf/parser.d
[54/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_sequence.d.o' -c ../bio/core/sequence.d
[55/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_compress.d.o' -c ../bio/core/bgzf/compress.d
[56/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_virtualoffset.d.o' -c ../bio/core/bgzf/virtualoffset.d
[57/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_utils_roundup.d.o' -c ../bio/sff/utils/roundup.d
[58/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_index.d.o' -c ../bio/sff/index.d
[59/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_call.d.o' -c ../bio/core/call.d
[60/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_block.d.o' -c ../bio/core/bgzf/block.d
[61/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_constants.d.o' -c ../bio/sff/constants.d
[62/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_read.d.o' -c ../bio/sff/read.d
[63/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_read.d.o' -c ../bio/bam/read.d
[64/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_reader.d.o' -c ../bio/sff/reader.d
[65/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sff_writer.d.o' -c ../bio/sff/writer.d
[66/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_inputstream.d.o' -c ../bio/core/bgzf/inputstream.d
[67/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_bgzf_outputstream.d.o' -c ../bio/core/bgzf/outputstream.d
[68/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sam_utils_recordparser.d.o' -c ../bio/sam/utils/recordparser.d
[69/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_core_fasta.d.o' -c ../bio/core/fasta.d
[70/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_tagvalue.d.o' -c ../bio/bam/tagvalue.d
[71/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sam_reader.d.o' -c ../bio/sam/reader.d
[72/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_md_core.d.o' -c ../bio/bam/md/core.d
[73/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_bam_multireader.d.o' -c ../bio/bam/multireader.d
[74/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_md_parse.d.o' -c ../bio/bam/md/parse.d
[75/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_utils_array.d.o' -c ../bio/bam/utils/array.d
[76/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_validation_alignment.d.o' -c ../bio/bam/validation/alignment.d
[77/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_utils_value.d.o' -c ../bio/bam/utils/value.d
[78/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_utils_graph.d.o' -c ../bio/bam/utils/graph.d
[79/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sam_utils_fastrecordparser.d.o' -c ../bio/sam/utils/fastrecordparser.d
[80/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_tinymap.d.o' -c ../bio/core/tinymap.d
[81/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_md_operation.d.o' -c ../bio/bam/md/operation.d
[82/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_baifile.d.o' -c ../bio/bam/baifile.d
[83/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_readrange.d.o' -c ../bio/bam/readrange.d
[84/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_iontorrent_flowindex.d.o' -c ../bio/bam/iontorrent/flowindex.d
[85/149] ldc2  -Ibiod at sha -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -relocation-model=pic  -of 'biod at sha/bio_sam_header.d.o' -c ../bio/sam/header.d
[86/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_splitter.d.o' -c ../bio/bam/splitter.d
[87/149] ldc2  -of libbiod.so.0.1.0 'biod at sha/bio_bam_utils_value.d.o' 'biod at sha/bio_bam_utils_samheadermerger.d.o' 'biod at sha/bio_bam_utils_array.d.o' 'biod at sha/bio_bam_utils_graph.d.o' 'biod at sha/bio_bam_pileup.d.o' 'biod at sha/bio_bam_readrange.d.o' 'biod at sha/bio_bam_reader.d.o' 'biod at sha/bio_bam_thirdparty_msgpack.d.o' 'biod at sha/bio_bam_baifile.d.o' 'biod at sha/bio_bam_iontorrent_flowcall.d.o' 'biod at sha/bio_bam_iontorrent_flowindex.d.o' 'biod at sha/bio_bam_splitter.d.o' 'biod at sha/bio_bam_abstractreader.d.o' 'biod at sha/bio_bam_bai_indexing.d.o' 'biod at sha/bio_bam_bai_bin.d.o' 'biod at sha/bio_bam_multireader.d.o' 'biod at sha/bio_bam_reference.d.o' 'biod at sha/bio_bam_md_operation.d.o' 'biod at sha/bio_bam_md_core.d.o' 'biod at sha/bio_bam_md_parse.d.o' 'biod at sha/bio_bam_md_reconstruct.d.o' 'biod at sha/bio_bam_tagvalue.d.o' 'biod at sha/bio_bam_validation_alignment.d.o' 'biod at sha/bio_bam_validation_samheader.d.o' 'biod at sha/bio_bam_region.d.o' 'biod at sha/bio_bam_randomaccessmanager.d.o' 'biod at sha/bio_bam_referenceinfo.d.o' 'biod at sha/bio_bam_constants.d.o' 'biod at sha/bio_bam_snpcallers_maq.d.o' 'biod at sha/bio_bam_snpcallers_simple.d.o' 'biod at sha/bio_bam_read.d.o' 'biod at sha/bio_bam_writer.d.o' 'biod at sha/bio_bam_baseinfo.d.o' 'biod at sha/bio_maf_reader.d.o' 'biod at sha/bio_maf_parser.d.o' 'biod at sha/bio_maf_block.d.o' 'biod at sha/bio_core_utils_memoize.d.o' 'biod at sha/bio_core_utils_algo.d.o' 'biod at sha/bio_core_utils_stream.d.o' 'biod at sha/bio_core_utils_zlib.d.o' 'biod at sha/bio_core_utils_tmpfile.d.o' 'biod at sha/bio_core_utils_roundbuf.d.o' 'biod at sha/bio_core_utils_format.d.o' 'biod at sha/bio_core_utils_bylinefast.d.o' 'biod at sha/bio_core_utils_range.d.o' 'biod at sha/bio_core_utils_switchendianness.d.o' 'biod at sha/bio_core_utils_outbuffer.d.o' 'biod at sha/bio_core_genotype.d.o' 'biod at sha/bio_core_fasta.d.o' 'biod at sha/bio_core_base.d.o' 'biod at sha/bio_core_kmer.d.o' 'biod at sha/bio_core_region.d.o' 'biod at sha/bio_core_tinymap.d.o' 'biod at sha/bio_core_sequence.d.o' 'biod at sha/bio_core_bgzf_outputstream.d.o' 'biod at sha/bio_core_bgzf_chunk.d.o' 'biod at sha/bio_core_bgzf_inputstream.d.o' 'biod at sha/bio_core_bgzf_constants.d.o' 'biod at sha/bio_core_bgzf_block.d.o' 'biod at sha/bio_core_bgzf_virtualoffset.d.o' 'biod at sha/bio_core_bgzf_compress.d.o' 'biod at sha/bio_core_call.d.o' 'biod at sha/bio_sff_utils_roundup.d.o' 'biod at sha/bio_sff_index.d.o' 'biod at sha/bio_sff_readrange.d.o' 'biod at sha/bio_sff_reader.d.o' 'biod at sha/bio_sff_constants.d.o' 'biod at sha/bio_sff_read.d.o' 'biod at sha/bio_sff_writer.d.o' 'biod at sha/bio_sam_utils_fastrecordparser.d.o' 'biod at sha/bio_sam_utils_recordparser.d.o' 'biod at sha/bio_sam_reader.d.o' 'biod at sha/bio_sam_header.d.o' -L-rpath=/build/libbiod-0.1.0/build/ -shared -relocation-model=pic -L-soname -Llibbiod.so.0 -O -g -release -L-z -Lrelro -L-z -Lnow -L-lundead -L-lz  
[88/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_md_reconstruct.d.o' -c ../bio/bam/md/reconstruct.d
[89/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_bai_bin.d.o' -c ../bio/bam/bai/bin.d
[90/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_abstractreader.d.o' -c ../bio/bam/abstractreader.d
[91/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_iontorrent_flowcall.d.o' -c ../bio/bam/iontorrent/flowcall.d
[92/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_reader.d.o' -c ../bio/bam/reader.d
[93/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_reference.d.o' -c ../bio/bam/reference.d
[94/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_validation_samheader.d.o' -c ../bio/bam/validation/samheader.d
[95/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_region.d.o' -c ../bio/bam/region.d
[96/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_constants.d.o' -c ../bio/bam/constants.d
[97/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_utils_samheadermerger.d.o' -c ../bio/bam/utils/samheadermerger.d
[98/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_bai_indexing.d.o' -c ../bio/bam/bai/indexing.d
[99/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_referenceinfo.d.o' -c ../bio/bam/referenceinfo.d
[100/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_snpcallers_simple.d.o' -c ../bio/bam/snpcallers/simple.d
[101/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_snpcallers_maq.d.o' -c ../bio/bam/snpcallers/maq.d
[102/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_pileup.d.o' -c ../bio/bam/pileup.d
[103/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_maf_block.d.o' -c ../bio/maf/block.d
[104/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_baseinfo.d.o' -c ../bio/bam/baseinfo.d
[105/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_algo.d.o' -c ../bio/core/utils/algo.d
[106/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_maf_reader.d.o' -c ../bio/maf/reader.d
[107/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_zlib.d.o' -c ../bio/core/utils/zlib.d
[108/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_writer.d.o' -c ../bio/bam/writer.d
[109/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_roundbuf.d.o' -c ../bio/core/utils/roundbuf.d
[110/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_format.d.o' -c ../bio/core/utils/format.d
[111/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_stream.d.o' -c ../bio/core/utils/stream.d
[112/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_thirdparty_msgpack.d.o' -c ../bio/bam/thirdparty/msgpack.d
[113/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_switchendianness.d.o' -c ../bio/core/utils/switchendianness.d
[114/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_tmpfile.d.o' -c ../bio/core/utils/tmpfile.d
[115/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_outbuffer.d.o' -c ../bio/core/utils/outbuffer.d
[116/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_bylinefast.d.o' -c ../bio/core/utils/bylinefast.d
[117/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_genotype.d.o' -c ../bio/core/genotype.d
[118/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_maf_parser.d.o' -c ../bio/maf/parser.d
[119/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_base.d.o' -c ../bio/core/base.d
[120/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_region.d.o' -c ../bio/core/region.d
[121/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_kmer.d.o' -c ../bio/core/kmer.d
[122/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_chunk.d.o' -c ../bio/core/bgzf/chunk.d
[123/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_memoize.d.o' -c ../bio/core/utils/memoize.d
[124/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_constants.d.o' -c ../bio/core/bgzf/constants.d
[125/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_utils_range.d.o' -c ../bio/core/utils/range.d
[126/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_sequence.d.o' -c ../bio/core/sequence.d
[127/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_block.d.o' -c ../bio/core/bgzf/block.d
[128/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_virtualoffset.d.o' -c ../bio/core/bgzf/virtualoffset.d
[129/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_utils_roundup.d.o' -c ../bio/sff/utils/roundup.d
[130/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_compress.d.o' -c ../bio/core/bgzf/compress.d
[131/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_index.d.o' -c ../bio/sff/index.d
[132/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_call.d.o' -c ../bio/core/call.d
[133/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_constants.d.o' -c ../bio/sff/constants.d
[134/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_read.d.o' -c ../bio/sff/read.d
[135/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_inputstream.d.o' -c ../bio/core/bgzf/inputstream.d
[136/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_reader.d.o' -c ../bio/sff/reader.d
[137/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_readrange.d.o' -c ../bio/sff/readrange.d
[138/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sff_writer.d.o' -c ../bio/sff/writer.d
[139/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_randomaccessmanager.d.o' -c ../bio/bam/randomaccessmanager.d
[140/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_fasta.d.o' -c ../bio/core/fasta.d
[141/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_core_bgzf_outputstream.d.o' -c ../bio/core/bgzf/outputstream.d
[142/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_read.d.o' -c ../bio/bam/read.d
[143/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_bam_multireader.d.o' -c ../bio/bam/multireader.d
[144/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sam_reader.d.o' -c ../bio/sam/reader.d
[145/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sam_utils_recordparser.d.o' -c ../bio/sam/utils/recordparser.d
[146/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sam_header.d.o' -c ../bio/sam/header.d
[147/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/bio_sam_utils_fastrecordparser.d.o' -c ../bio/sam/utils/fastrecordparser.d
[148/149] ldc2  -Ibiod_test at exe -I. -I.. -I -I../ -I/usr/include/d/ -enable-color -O -g -release -unittest  -of 'biod_test at exe/test_unittests.d.o' -c ../test/unittests.d
[149/149] ldc2  -of biod_test 'biod_test at exe/test_unittests.d.o' 'biod_test at exe/bio_bam_utils_value.d.o' 'biod_test at exe/bio_bam_utils_samheadermerger.d.o' 'biod_test at exe/bio_bam_utils_array.d.o' 'biod_test at exe/bio_bam_utils_graph.d.o' 'biod_test at exe/bio_bam_pileup.d.o' 'biod_test at exe/bio_bam_readrange.d.o' 'biod_test at exe/bio_bam_reader.d.o' 'biod_test at exe/bio_bam_thirdparty_msgpack.d.o' 'biod_test at exe/bio_bam_baifile.d.o' 'biod_test at exe/bio_bam_iontorrent_flowcall.d.o' 'biod_test at exe/bio_bam_iontorrent_flowindex.d.o' 'biod_test at exe/bio_bam_splitter.d.o' 'biod_test at exe/bio_bam_abstractreader.d.o' 'biod_test at exe/bio_bam_bai_indexing.d.o' 'biod_test at exe/bio_bam_bai_bin.d.o' 'biod_test at exe/bio_bam_multireader.d.o' 'biod_test at exe/bio_bam_reference.d.o' 'biod_test at exe/bio_bam_md_operation.d.o' 'biod_test at exe/bio_bam_md_core.d.o' 'biod_test at exe/bio_bam_md_parse.d.o' 'biod_test at exe/bio_bam_md_reconstruct.d.o' 'biod_test at exe/bio_bam_tagvalue.d.o' 'biod_test at exe/bio_bam_validation_alignment.d.o' 'biod_test at exe/bio_bam_validation_samheader.d.o' 'biod_test at exe/bio_bam_region.d.o' 'biod_test at exe/bio_bam_randomaccessmanager.d.o' 'biod_test at exe/bio_bam_referenceinfo.d.o' 'biod_test at exe/bio_bam_constants.d.o' 'biod_test at exe/bio_bam_snpcallers_maq.d.o' 'biod_test at exe/bio_bam_snpcallers_simple.d.o' 'biod_test at exe/bio_bam_read.d.o' 'biod_test at exe/bio_bam_writer.d.o' 'biod_test at exe/bio_bam_baseinfo.d.o' 'biod_test at exe/bio_maf_reader.d.o' 'biod_test at exe/bio_maf_parser.d.o' 'biod_test at exe/bio_maf_block.d.o' 'biod_test at exe/bio_core_utils_memoize.d.o' 'biod_test at exe/bio_core_utils_algo.d.o' 'biod_test at exe/bio_core_utils_stream.d.o' 'biod_test at exe/bio_core_utils_zlib.d.o' 'biod_test at exe/bio_core_utils_tmpfile.d.o' 'biod_test at exe/bio_core_utils_roundbuf.d.o' 'biod_test at exe/bio_core_utils_format.d.o' 'biod_test at exe/bio_core_utils_bylinefast.d.o' 'biod_test at exe/bio_core_utils_range.d.o' 'biod_test at exe/bio_core_utils_switchendianness.d.o' 'biod_test at exe/bio_core_utils_outbuffer.d.o' 'biod_test at exe/bio_core_genotype.d.o' 'biod_test at exe/bio_core_fasta.d.o' 'biod_test at exe/bio_core_base.d.o' 'biod_test at exe/bio_core_kmer.d.o' 'biod_test at exe/bio_core_region.d.o' 'biod_test at exe/bio_core_tinymap.d.o' 'biod_test at exe/bio_core_sequence.d.o' 'biod_test at exe/bio_core_bgzf_outputstream.d.o' 'biod_test at exe/bio_core_bgzf_chunk.d.o' 'biod_test at exe/bio_core_bgzf_inputstream.d.o' 'biod_test at exe/bio_core_bgzf_constants.d.o' 'biod_test at exe/bio_core_bgzf_block.d.o' 'biod_test at exe/bio_core_bgzf_virtualoffset.d.o' 'biod_test at exe/bio_core_bgzf_compress.d.o' 'biod_test at exe/bio_core_call.d.o' 'biod_test at exe/bio_sff_utils_roundup.d.o' 'biod_test at exe/bio_sff_index.d.o' 'biod_test at exe/bio_sff_readrange.d.o' 'biod_test at exe/bio_sff_reader.d.o' 'biod_test at exe/bio_sff_constants.d.o' 'biod_test at exe/bio_sff_read.d.o' 'biod_test at exe/bio_sff_writer.d.o' 'biod_test at exe/bio_sam_utils_fastrecordparser.d.o' 'biod_test at exe/bio_sam_utils_recordparser.d.o' 'biod_test at exe/bio_sam_reader.d.o' 'biod_test at exe/bio_sam_header.d.o' -O -g -release -L-z -Lrelro -L-z -Lnow -L-lundead -L-lz  
FAILED: biod_test 
ldc2  -of biod_test 'biod_test at exe/test_unittests.d.o' 'biod_test at exe/bio_bam_utils_value.d.o' 'biod_test at exe/bio_bam_utils_samheadermerger.d.o' 'biod_test at exe/bio_bam_utils_array.d.o' 'biod_test at exe/bio_bam_utils_graph.d.o' 'biod_test at exe/bio_bam_pileup.d.o' 'biod_test at exe/bio_bam_readrange.d.o' 'biod_test at exe/bio_bam_reader.d.o' 'biod_test at exe/bio_bam_thirdparty_msgpack.d.o' 'biod_test at exe/bio_bam_baifile.d.o' 'biod_test at exe/bio_bam_iontorrent_flowcall.d.o' 'biod_test at exe/bio_bam_iontorrent_flowindex.d.o' 'biod_test at exe/bio_bam_splitter.d.o' 'biod_test at exe/bio_bam_abstractreader.d.o' 'biod_test at exe/bio_bam_bai_indexing.d.o' 'biod_test at exe/bio_bam_bai_bin.d.o' 'biod_test at exe/bio_bam_multireader.d.o' 'biod_test at exe/bio_bam_reference.d.o' 'biod_test at exe/bio_bam_md_operation.d.o' 'biod_test at exe/bio_bam_md_core.d.o' 'biod_test at exe/bio_bam_md_parse.d.o' 'biod_test at exe/bio_bam_md_reconstruct.d.o' 'biod_test at exe/bio_bam_tagvalue.d.o' 'biod_test at exe/bio_bam_validation_alignment.d.o' 'biod_test at exe/bio_bam_validation_samheader.d.o' 'biod_test at exe/bio_bam_region.d.o' 'biod_test at exe/bio_bam_randomaccessmanager.d.o' 'biod_test at exe/bio_bam_referenceinfo.d.o' 'biod_test at exe/bio_bam_constants.d.o' 'biod_test at exe/bio_bam_snpcallers_maq.d.o' 'biod_test at exe/bio_bam_snpcallers_simple.d.o' 'biod_test at exe/bio_bam_read.d.o' 'biod_test at exe/bio_bam_writer.d.o' 'biod_test at exe/bio_bam_baseinfo.d.o' 'biod_test at exe/bio_maf_reader.d.o' 'biod_test at exe/bio_maf_parser.d.o' 'biod_test at exe/bio_maf_block.d.o' 'biod_test at exe/bio_core_utils_memoize.d.o' 'biod_test at exe/bio_core_utils_algo.d.o' 'biod_test at exe/bio_core_utils_stream.d.o' 'biod_test at exe/bio_core_utils_zlib.d.o' 'biod_test at exe/bio_core_utils_tmpfile.d.o' 'biod_test at exe/bio_core_utils_roundbuf.d.o' 'biod_test at exe/bio_core_utils_format.d.o' 'biod_test at exe/bio_core_utils_bylinefast.d.o' 'biod_test at exe/bio_core_utils_range.d.o' 'biod_test at exe/bio_core_utils_switchendianness.d.o' 'biod_test at exe/bio_core_utils_outbuffer.d.o' 'biod_test at exe/bio_core_genotype.d.o' 'biod_test at exe/bio_core_fasta.d.o' 'biod_test at exe/bio_core_base.d.o' 'biod_test at exe/bio_core_kmer.d.o' 'biod_test at exe/bio_core_region.d.o' 'biod_test at exe/bio_core_tinymap.d.o' 'biod_test at exe/bio_core_sequence.d.o' 'biod_test at exe/bio_core_bgzf_outputstream.d.o' 'biod_test at exe/bio_core_bgzf_chunk.d.o' 'biod_test at exe/bio_core_bgzf_inputstream.d.o' 'biod_test at exe/bio_core_bgzf_constants.d.o' 'biod_test at exe/bio_core_bgzf_block.d.o' 'biod_test at exe/bio_core_bgzf_virtualoffset.d.o' 'biod_test at exe/bio_core_bgzf_compress.d.o' 'biod_test at exe/bio_core_call.d.o' 'biod_test at exe/bio_sff_utils_roundup.d.o' 'biod_test at exe/bio_sff_index.d.o' 'biod_test at exe/bio_sff_readrange.d.o' 'biod_test at exe/bio_sff_reader.d.o' 'biod_test at exe/bio_sff_constants.d.o' 'biod_test at exe/bio_sff_read.d.o' 'biod_test at exe/bio_sff_writer.d.o' 'biod_test at exe/bio_sam_utils_fastrecordparser.d.o' 'biod_test at exe/bio_sam_utils_recordparser.d.o' 'biod_test at exe/bio_sam_reader.d.o' 'biod_test at exe/bio_sam_header.d.o' -O -g -release -L-z -Lrelro -L-z -Lnow -L-lundead -L-lz  
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi':
(.text._D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi[_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi]+0x11f2): undefined reference to `_D3std3utf7toUTF16FNaNfxAaZAyu'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi':
(.text._D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi[_D6undead6stream6Stream6vreadfMFAC8TypeInfoPS6object13__va_list_tagZi]+0x1213): undefined reference to `_D3std3utf7toUTF32FNaNfxAaZAyw'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv]+0x540): undefined reference to `_D3std3utf6toUTF8FNaNfxAuZAya'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZv]+0x5bf): undefined reference to `_D3std3utf6toUTF8FNaNfxAwZAya'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv]+0x11a3): undefined reference to `_D3std3utf6toUTF8FNaNfxAwZAya'
/usr/lib/gcc/x86_64-linux-gnu/6/../../../x86_64-linux-gnu/libundead.a(src_undead_stream.d.o): In function `_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv':
(.text._D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv[_D6undead8doformat13__T8doFormatZ8doFormatFMDFwZvAC8TypeInfoPS6object13__va_list_tagZ9formatArgMFaZv]+0x128a): undefined reference to `_D3std3utf6toUTF8FNaNfxAuZAya'
collect2: error: ld returned 1 exit status
Error: /usr/bin/gcc failed with status: 1
ninja: build stopped: subcommand failed.
debian/rules:20: recipe for target 'override_dh_auto_build' failed
make[1]: *** [override_dh_auto_build] Error 1
make[1]: Leaving directory '/build/libbiod-0.1.0'
debian/rules:13: recipe for target 'build' failed
make: *** [build] Error 2
dpkg-buildpackage: error: debian/rules build gave error exit status 2
[0mI: copying local configuration[0m
[0;31mE: Failed autobuilding of package[0m
[0mI: unmounting dev/pts filesystem[0m
[0mI: unmounting dev/shm filesystem[0m
[0mI: unmounting proc filesystem[0m
[0mI: unmounting sys filesystem[0m
[0mI: cleaning the build env [0m
[0mI: removing directory /tmp/build/2177 and its subdirectories[0m
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