Your message dated Sat, 18 Aug 2018 10:52:16 +0000
with message-id <[email protected]>
and subject line Bug#906486: fixed in libseqlib 1.1.2+dfsg-2
has caused the Debian Bug report #906486,
regarding libseqlib: FTBFS in buster/sid (dh_makeshlibs fails)
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
906486: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=906486
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:libseqlib
Version: 1.1.2+dfsg-1
Severity: serious
Tags: ftbfs
Dear maintainer:
I tried to build this package in buster but it failed:
--------------------------------------------------------------------------------
[...]
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac,
libtoolize: and rerunning libtoolize and aclocal.
libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
libtoolize: 'AC_PROG_RANLIB' is rendered obsolete by 'LT_INIT'
configure.ac:17: installing './compile'
configure.ac:19: installing './config.guess'
configure.ac:19: installing './config.sub'
configure.ac:4: installing './missing'
[... snipped ...]
_ZNSt6vectorIdSaIdEE17_M_realloc_insertIJdEEEvN9__gnu_cxx17__normal_iteratorIPdS1_EEDpOT_@Base
1.1.1+dfsg
_ZNSt6vectorIiSaIiEE12emplace_backIJiEEEvDpOT_@Base 1.1.1+dfsg
_ZNSt6vectorIiSaIiEE17_M_realloc_insertIJiEEEvN9__gnu_cxx17__normal_iteratorIPiS1_EEDpOT_@Base
1.1.1+dfsg
+ _ZNSt6vectorImSaImEE17_M_default_appendEm@Base 1.1.2+dfsg-1
+
_ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEE12_M_constructIPKcEEvT_S8_St20forward_iterator_tag@Base
1.1.2+dfsg-1
+
_ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEE12_M_constructIPcEEvT_S7_St20forward_iterator_tag@Base
1.1.2+dfsg-1
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED0Ev@Base 1.1.1+dfsg
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED1Ev@Base 1.1.1+dfsg
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED2Ev@Base 1.1.1+dfsg
_ZNSt7__cxx114listIN6SeqLib13GenomicRegionESaIS2_EE4sortEv@Base 1.1.1+dfsg
_ZNSt7__cxx114listIN6SeqLib13GenomicRegionESaIS2_EE5mergeEOS4_@Base 1.1.1+dfsg
+
_ZNSt8_Rb_treeIN12aho_corasick7ahoemitIcEES2_St9_IdentityIS2_ESt4lessIS2_ESaIS2_EE16_M_insert_uniqueIRKS2_EESt4pairISt17_Rb_tree_iteratorIS2_EbEOT_@Base
1.1.2+dfsg-1
_ZNSt8_Rb_treeIN12aho_corasick7ahoemitIcEES2_St9_IdentityIS2_ESt4lessIS2_ESaIS2_EE8_M_eraseEPSt13_Rb_tree_nodeIS2_E@Base
1.1.1+dfsg
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St9_IdentityIS5_ESt4lessIS5_ESaIS5_EE16_M_insert_uniqueIRKS5_EESt4pairISt17_Rb_tree_iteratorIS5_EbEOT_@Base
1.1.1+dfsg
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St9_IdentityIS5_ESt4lessIS5_ESaIS5_EE7_M_copyINSB_11_Alloc_nodeEEEPSt13_Rb_tree_nodeIS5_EPKSF_PSt18_Rb_tree_node_baseRT_@Base
1.1.1+dfsg
@@ -387,6 +396,8 @@
_ZNSt8_Rb_treeIcSt4pairIKcSt10unique_ptrIN12aho_corasick5stateIcEESt14default_deleteIS5_EEESt10_Select1stIS9_ESt4lessIcESaIS9_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS9_ERS1_@Base
1.1.1+dfsg
_ZNSt8_Rb_treeIcSt4pairIKcSt10unique_ptrIN12aho_corasick5stateIcEESt14default_deleteIS5_EEESt10_Select1stIS9_ESt4lessIcESaIS9_EE8_M_eraseEPSt13_Rb_tree_nodeIS9_E@Base
1.1.1+dfsg
_ZNSt8__detail9_Map_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS6_N6SeqLib4_BamEESaISB_ENS_10_Select1stESt8equal_toIS6_ESt4hashIS6_ENS_18_Mod_range_hashingENS_20_Default_ranged_hashENS_20_Prime_rehash_policyENS_17_Hashtable_traitsILb1ELb0ELb1EEELb1EEixERS8_@Base
1.1.1+dfsg
+
_ZSt10__pop_heapIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E0_EEEvT_SK_SK_RT0_@Base
1.1.2+dfsg-1
+
_ZSt10__pop_heapIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E_EEEvT_SK_SK_RT0_@Base
1.1.2+dfsg-1
_ZSt11__make_heapIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E0_EEEvT_SK_RT0_@Base
1.1.1+dfsg
_ZSt11__make_heapIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E_EEEvT_SK_RT0_@Base
1.1.1+dfsg
_ZSt11__make_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib11PlottedReadESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_RT0_@Base
1.1.1+dfsg
@@ -395,6 +406,7 @@
_ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib11PlottedReadESt6vectorIS3_SaIS3_EEEElS3_NS0_5__ops15_Iter_less_iterEEvT_T0_SC_T1_T2_@Base
1.1.1+dfsg
_ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib13GenomicRegionESt6vectorIS3_SaIS3_EEEElS3_NS0_5__ops15_Iter_less_iterEEvT_T0_SC_T1_T2_@Base
1.1.1+dfsg
_ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib9TIntervalIimEESt6vectorIS4_SaIS4_EEEElS4_NS0_5__ops15_Iter_comp_iterINS2_19IntervalStartSorterIimEEEEEvT_T0_SG_T1_T2_@Base
1.1.1+dfsg
+
_ZSt13__heap_selectIN9__gnu_cxx17__normal_iteratorIPN6SeqLib13GenomicRegionESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_SB_T0_@Base
1.1.2+dfsg-1
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E0_EEEvT_SK_T0_@Base
1.1.1+dfsg
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E_EEEvT_SK_T0_@Base
1.1.1+dfsg
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPN6SeqLib11PlottedReadESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_T0_@Base
1.1.1+dfsg
@@ -404,8 +416,11 @@
_ZSt16__introsort_loopIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEElNS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E_EEEvT_SK_T0_T1_@Base
1.1.1+dfsg
_ZSt16__introsort_loopIN9__gnu_cxx17__normal_iteratorIPN6SeqLib9TIntervalIimEESt6vectorIS4_SaIS4_EEEElNS0_5__ops15_Iter_comp_iterINS2_19IntervalStartSorterIimEEEEEvT_SF_T0_T1_@Base
1.1.1+dfsg
_ZSt22__move_median_to_firstIN9__gnu_cxx17__normal_iteratorIPN6SeqLib13GenomicRegionESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_SB_SB_T0_@Base
1.1.1+dfsg
+
_ZSt22__move_median_to_firstIN9__gnu_cxx17__normal_iteratorIPN6SeqLib9TIntervalIimEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterINS2_19IntervalStartSorterIimEEEEEvT_SF_SF_SF_T0_@Base
1.1.2+dfsg-1
+
_ZSt25__unguarded_linear_insertIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops14_Val_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E0_EEEvT_T0_@Base
1.1.2+dfsg-1
_ZSt25__unguarded_linear_insertIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops14_Val_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E_EEEvT_T0_@Base
1.1.1+dfsg
_ZSt25__unguarded_linear_insertIN9__gnu_cxx17__normal_iteratorIPN6SeqLib11PlottedReadESt6vectorIS3_SaIS3_EEEENS0_5__ops14_Val_less_iterEEvT_T0_@Base
1.1.1+dfsg
+
_ZSt25__unguarded_linear_insertIN9__gnu_cxx17__normal_iteratorIPN6SeqLib9TIntervalIimEESt6vectorIS4_SaIS4_EEEENS0_5__ops14_Val_comp_iterINS2_19IntervalStartSorterIimEEEEEvT_T0_@Base
1.1.2+dfsg-1
_ZSt4swapIN12aho_corasick7ahoemitIcEEENSt9enable_ifIXsrSt6__and_IJSt6__not_ISt15__is_tuple_likeIT_EESt21is_move_constructibleIS7_ESt18is_move_assignableIS7_EEE5valueEvE4typeERS7_SH_@Base
1.1.1+dfsg
_ZSt9__find_ifIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops16_Iter_equals_valIKS4_EEET_SE_SE_T0_St26random_access_iterator_tag@Base
1.1.1+dfsg
_ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEOS8_PKS5_@Base
1.1.1+dfsg
dh_makeshlibs: failing due to earlier errors
make: *** [debian/rules:10: binary-arch] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary-arch subprocess returned
exit status 2
--------------------------------------------------------------------------------
The build was made with "dpkg-buildpackage -B" in my autobuilder.
Most probably, it also fails here in reproducible builds:
https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/libseqlib.html
where you can get a full build log if you need it.
If this is really a bug in one of the build-depends, please use reassign and
affects,
so that this is still visible in the BTS web page for this package.
Thanks.
--- End Message ---
--- Begin Message ---
Source: libseqlib
Source-Version: 1.1.2+dfsg-2
We believe that the bug you reported is fixed in the latest version of
libseqlib, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated libseqlib package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sat, 18 Aug 2018 12:26:38 +0200
Source: libseqlib
Binary: libseqlib1 libseqlib-dev
Architecture: source
Version: 1.1.2+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
libseqlib-dev - C++ htslib/bwa-mem/fermi interface for interrogating sequence
dat
libseqlib1 - C++ htslib/bwa-mem/fermi interface for interrogating sequence dat
Closes: 906486
Changes:
libseqlib (1.1.2+dfsg-2) unstable; urgency=medium
.
* Adapt symbols file to new gcc-8
Closes: #906486
* Standards-Version: 4.2.0
Checksums-Sha1:
10e9c55b056d9341cb4335a8c80f4b762cc005f0 2205 libseqlib_1.1.2+dfsg-2.dsc
28dc420b9014d0b548b18348999dca9ce765bf80 11864
libseqlib_1.1.2+dfsg-2.debian.tar.xz
Checksums-Sha256:
d0f019e728cdac0702476d7084fd65980ca8414ceaee265f1f369c10abadb071 2205
libseqlib_1.1.2+dfsg-2.dsc
96c04c4247999fa039daf0a76406d58fe290793acf5c6d2667ffccd8d6885062 11864
libseqlib_1.1.2+dfsg-2.debian.tar.xz
Files:
e466a876aa7773f9c8d8fa80d3f2f6a9 2205 science optional
libseqlib_1.1.2+dfsg-2.dsc
22985717a69b2d95f2e8f74bc713a3b9 11864 science optional
libseqlib_1.1.2+dfsg-2.debian.tar.xz
-----BEGIN PGP SIGNATURE-----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=az1w
-----END PGP SIGNATURE-----
--- End Message ---