Your message dated Wed, 20 May 2020 15:18:48 +0000
with message-id <e1jbqua-0003vp...@fasolo.debian.org>
and subject line Bug#947827: fixed in atlas 3.10.3-10
has caused the Debian Bug report #947827,
regarding Missing symbols in -lblas ?
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.
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--
947827: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=947827
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: libatlas3-base
Version: 3.10.3-9
I tried to work on the scilab package, but couldn't get very far : for
some reason, the configure script was failing to detect the umfpack
library. But looking in config.log, I found out the reason was that the
BLAS used is atlas, and linking to it gives many undefined references :
configure:30844: gcc -o conftest -g -O2 -fdebug-prefix-
map=/home/jpuydt/Debian/build/scilab-6.0.2=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-
z,relro -Wl,-z,now -Wl,--no-as-needed conftest.c -lumfpack -lamd
-lblas -lpthread -ldl -lcurses -lm -lm >&5
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dgeset'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dgemoveT'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sger'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cgeset'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dtrscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cgemaxnrm'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zgeru'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cgemoveT'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dgemaxnrm'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zcplxdivide'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sgemaxnrm'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_csqtrans'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zGetNB'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dGetNB'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dger'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_ztrscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_ssqtrans'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_ccplxdivide'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dgezero'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cgeru'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sgeset'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sgezero'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_xerbla'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_ctrscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zgemaxnrm'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cgezero'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zgezero'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dgescal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_ccplxinvert'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zgemoveT'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_dsqtrans'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zgeset'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_cGetNB'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sGetNB'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_strscal'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zcplxinvert'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_zsqtrans'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sgemoveT'
/usr/bin/ld: /lib/x86_64-linux-gnu/liblapack.so.3: undefined reference
to `ATL_sgescal'
collect2: error: ld returned 1 exit status
I tried to make a simpler failing test.c:
int umfpack_di_solve();
int main()
{
return umfpack_di_solve();
}
compiles with gcc -o test test.c -lumfpack
doesn't compile with gcc -o test test.c -lumfpack -lblas
compiles with gcc -o test test.c -lumfpack -llapack -lblas
Hope it helps,
JP
--- End Message ---
--- Begin Message ---
Source: atlas
Source-Version: 3.10.3-10
Done: =?utf-8?q?S=C3=A9bastien_Villemot?= <sebast...@debian.org>
We believe that the bug you reported is fixed in the latest version of
atlas, 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 947...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Sébastien Villemot <sebast...@debian.org> (supplier of updated atlas 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 ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Wed, 20 May 2020 16:42:23 +0200
Source: atlas
Architecture: source
Version: 3.10.3-10
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Sébastien Villemot <sebast...@debian.org>
Closes: 947827 957015
Changes:
atlas (3.10.3-10) unstable; urgency=medium
.
* Fix missing symbols in liblapack.so.3 when libblas.so.3 is not the one from
ATLAS.
The problem was that, in 3.10.3-9, liblapack.so.3 was no longer linked to
libatlas.so.3, despite an explicit -latlas in the link command.
This was due to the combination of two factors:
— ld now defaulting to --as-needed in bullseye
— libatlas.so.3 symbols being erroneously embedded in libblas.so.3
The fix consists in no longer embedding libatlas.so.3 symbols inside
libblas.so.3 (this has always been the intent, for some reason this had not
been correctly done). (Closes: #947827)
* debian/rules: simplify using debhelper 12.8’s execute_{before,after}_*
rules
* Bump to debhelper 13
— this allows dropping the B-D on dh-exec
— mention libsatlas.so and libtatlas.so in debian/not-installed
* Separate the {build,binary}-arch rules from {build,binary}-indep
* Drop debian/NEWS.Debian: it has never been installed, since it had an
incorrect name
* Bump S-V to 4.5.0
* gfortran-10.patch: new patch, fixes FTBFS against gfortran 10
(Closes: #957015)
Checksums-Sha1:
180dc4cff6cd89b43963cebe146b877f9f19cfc9 2233 atlas_3.10.3-10.dsc
85e99f0e32f4235e129363528199bef70d46d5f3 160408 atlas_3.10.3-10.debian.tar.xz
d1dd66f7145b9a63158935ca5ff1403b5bdd2680 9269 atlas_3.10.3-10_amd64.buildinfo
Checksums-Sha256:
b109b3c2c077dff91d1c2b83ac7aa9b57530ad3938d1e3f5ce47f89cca463c4d 2233
atlas_3.10.3-10.dsc
61e1735b53b28c3aaf51edb912b7afe02c39c9bc69b56110a74813ca8355819f 160408
atlas_3.10.3-10.debian.tar.xz
cd992c49187ee6168a07908173b47d50f3635767b3a68a74a34ff2ef70fd01ba 9269
atlas_3.10.3-10_amd64.buildinfo
Files:
2d515c5b4ea869b5c80a9d85a2f9e173 2233 devel optional atlas_3.10.3-10.dsc
1b945449b29bf4eecb81c27625202cfd 160408 devel optional
atlas_3.10.3-10.debian.tar.xz
b82a188f85466317e649738d2c8d0df5 9269 devel optional
atlas_3.10.3-10_amd64.buildinfo
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--- End Message ---
