Hi,
sambamba package has not fixed this problem with ldc 1:1.4.0-1.
Also, I confirmed that diet-ng fixed this problem.
-
dpkg-buildpackage -rfakeroot -us -uc
dpkg-buildpackage: info: source package sambamba
dpkg-buildpackage: info: source version 0.6.6-1
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille
dpkg-source --before-build sambamba-0.6.6
dpkg-buildpackage: info: host architecture amd64
fakeroot debian/rules clean
dh clean --buildsystem=meson
dh_auto_clean -O--buildsystem=meson
dh_autoreconf_clean -O--buildsystem=meson
dh_clean -O--buildsystem=meson
dpkg-source -b sambamba-0.6.6
dpkg-source: info: using source format '3.0 (quilt)'
dpkg-source: info: building sambamba using existing ./sambamba_0.6.6.orig.tar.gz
dpkg-source: info: building sambamba in sambamba_0.6.6-1.debian.tar.xz
dpkg-source: info: building sambamba in sambamba_0.6.6-1.dsc
debian/rules build
dh build --buildsystem=meson
dh_update_autotools_config -O--buildsystem=meson
dh_autoreconf -O--buildsystem=meson
dh_auto_configure -O--buildsystem=meson
meson .. --wrap-mode=nodownload --buildtype=plain
--prefix=/usr --sysconfdir=/etc --localstatedir=/var
--libdir=lib/x86_64-linux-gnu --libexecdir=lib/x86_64-linux-gnu
Warning: You are using 'ANSI_X3.4-1968' which is not a a
Unicode-compatible locale.
You might see errors if you use UTF-8 strings as filenames, as
strings, or as file contents.
Please switch to a UTF-8 locale for your platform.
The Meson build system
Version: 0.42.1
Source dir: /home/iwa/t3/sambamba-0.6.6
Build dir: /home/iwa/t3/sambamba-0.6.6/obj-x86_64-linux-gnu
Build type: native build
Project name: Sambamba
Native D compiler: ldc2 (llvm 1.4.0)
Appending DFLAGS from environment: '-O2 -g -release'
Appending LDFLAGS from environment: '-Wl,-z,relro'
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 1.0.7
Native dependency biod found: YES 0.1.0
Native dependency liblz4 found: YES 1.8.0
Native dependency htslib found: YES 1.5-1
Program ldmd2 found: YES (/usr/bin/ldmd2)
Program mkdir found: YES (/bin/mkdir)
Build targets in project: 2
dh_auto_build -O--buildsystem=meson
ninja -j8 -v
[1/74] ldc2 -Isambamba@exe -I. -I.. -I/usr/include/d/
-I/usr/include/htslib -enable-color -O2 -g -release -of
'sambamba@exe/main.d.o' -c ../main.d
../sambamba/utils/common/readstorage.d(22): Deprecation: module
std.c.stdlib is deprecated - Import core.stdc.stdlib or
core.sys.posix.stdlib instead
../sambamba/utils/common/readstorage.d(23): Deprecation: module
std.c.string is deprecated - Import core.stdc.string instead
../sambamba/utils/common/readstorage.d(23): Deprecation: module
std.c.string is deprecated - Import core.stdc.string instead
../sambamba/sort.d(45): Deprecation: module std.c.stdlib is deprecated
- Import core.stdc.stdlib or core.sys.posix.stdlib instead
../sambamba/sort.d(46): Deprecation: module std.c.string is deprecated
- Import core.stdc.string instead
../sambamba/markdup.d(37): Deprecation: module std.c.stdlib is
deprecated - Import core.stdc.stdlib or core.sys.posix.stdlib instead
../sambamba/depth.d(1154): Deprecation: Implicit string concatenation
is deprecated, use "mapping_quality > 0 and " ~ "not duplicate and "
instead
../sambamba/depth.d(1155): Deprecation: Implicit string concatenation
is deprecated, use "not duplicate and " ~ "not failed_quality_control"
instead
[2/74] ldc2 -Isambamba@exe -I. -I.. -I/usr/include/d/
-I/usr/include/htslib -enable-color -O2 -g -release -of
'sambamba@exe/sambamba_index.d.o' -c ../sambamba/index.d
[3/74] ldc2 -Isambamba@exe -I. -I.. -I/usr/include/d/
-I/usr/include/htslib -enable-color -O2 -g -release -of
'sambamba@exe/sambamba_fixbins.d.o' -c ../sambamba/fixbins.d
[4/74] ldc2 -Isambamba@exe -I. -I.. -I/usr/include/d/
-I/usr/include/htslib -enable-color -O2 -g -release -of
'sambamba@exe/sambamba_depth.d.o' -c ../sambamba/depth.d
FAILED: sambamba@exe/sambamba_depth.d.o
ldc2 -Isambamba@exe -I. -I.. -I/usr/include/d/ -I/usr/include/htslib
-enable-color -O2 -g -release -of 'sambamba@exe/sambamba_depth.d.o'
-c ../sambamba/depth.d
../sambamba/depth.d(1154): Deprecation: Implicit string concatenation
is deprecated, use "mapping_quality > 0 and " ~ "not duplicate and "
instead
../sambamba/depth.d(1155): Deprecation: Implicit string concatenation
is deprecated, use "not duplicate and " ~ "not failed_quality_control"
instead
/usr/lib/x86_64-linux-gnu/libLLVM-5.0.so.1(_ZN4llvm3sys15PrintStackTraceERNS_11raw_ostreamE+0x1a)[0x7fec38558cda]
/usr/lib/x86_64-linux-gnu/libLLVM-5.0.so.1(_ZN4llvm3sys17RunSignalHandlersEv+0x56)[0x7fec38556fc6]
/usr/lib/x86_64-linux-gnu/libLLVM-5.0.so.1(+0x86e0e3)[0x7fec385570e3]
/lib/x86_64-linux-gnu/libpthread.so.0(+0x110c0)[0x7fec376d10c0]
ldc2(+0x2d6242)[0x59e7bce242]
ldc2(+0x35b517)[0x59e7c53517]
ldc2(+0x35babb)[0x59e7c53abb]
ldc2(+0x31e1d0)[0x59e7c161d0]