Your message dated Thu, 05 Jul 2018 11:04:08 +0000
with message-id <[email protected]>
and subject line Bug#902990: fixed in python-fitsio 0.9.11+dfsg-2
has caused the Debian Bug report #902990,
regarding FTBFS: bus error, alignment problems
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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--
902990: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=902990
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: python-fitsio
Version: 0.9.11+dfsg-1
Severity: serious
Justification: fails to build from source (but built successfully in the past)
Hi!
First seen on the build arm-arm-01 which is an arm64 machine
configured to build for armhf, build log at
https://buildd.debian.org/status/fetch.php?pkg=python-fitsio&arch=armhf&ver=0.9.11%2Bdfsg-1%2Bb2&stamp=1530604224&raw=0
I can similarly reproduce this on other arm64 hardware. Backtrace
shows:
(gdb) bt
#0 ffi8fi8 (input=input@entry=0x16568df, ntodo=ntodo@entry=1, scale=1, zero=0,
output=output@entry=0xfff3d1a0, status=status@entry=0xfff44384) at
putcolj.c:1871
#1 0xf6cc5a8a in ffpcljj (fptr=0x15d3660, colnum=8, firstrow=<optimized out>,
firstelem=1, nelem=1, array=0x16568df, status=0xfff44384) at putcolj.c:1428
#2 0xf6cc5c3c in ffpcljj (fptr=<optimized out>, colnum=<optimized out>,
firstrow=<optimized out>, firstelem=firstelem@entry=1, nelem=nelem@entry=1,
array=array@entry=0x16568df,
status=status@entry=0xfff44384) at putcolj.c:1538
#3 0xf6cbc2b4 in ffpcl (fptr=<optimized out>, datatype=<optimized out>,
colnum=<optimized out>, firstrow=1, firstelem=1, nelem=1, array=0x16568df,
status=0xfff44384) at putcol.c:701
#4 0xf6e02a26 in ?? ()
Backtrace stopped: previous frame identical to this frame (corrupt stack?)
(gdb) p input
$2 = (LONGLONG *) 0x16568df
Disassembly of the problem area gives:
0xf6cc54ce <+206>: ldr.w r0, [r10]
0xf6cc54d2 <+210>: ldmia.w sp!, {r4, r5, r6, r7, r8, r10, r11, pc}
0xf6cc54d6 <+214>: cmp r1, #0
0xf6cc54d8 <+216>: ble.n 0xf6cc54ca <ffi8fi8+202>
0xf6cc54da <+218>: subs r2, #8
0xf6cc54dc <+220>: add.w r1, r0, r1, lsl #3
=> 0xf6cc54e0 <+224>: ldrd r4, r5, [r0], #8
0xf6cc54e4 <+228>: cmp r1, r0
0xf6cc54e6 <+230>: strd r4, r5, [r2, #8]!
0xf6cc54ea <+234>: bne.n 0xf6cc54e0 <ffi8fi8+224>
0xf6cc54ec <+236>: vpop {d8-d12}
0xf6cc54f0 <+240>: ldr.w r0, [r10]
The offending ldrd instruction here clearly matches up with the
source, which is the simple-case loop in ffi8fi8():
if (scale == 1. && zero == 0.)
{
for (ii = 0; ii < ntodo; ii++)
output[ii] = input[ii];
}
The ldrd instruction will be the read from input[ii]. That's clearly
unaligned, given the LONGLONG *input which starts at 0x16568df.
This doesn't look like an issue with the compiler coalescing unrelated
values (which was an initial guess at the problem when discussing it
in #debian-buildd). It's simply reading an unaligned 64-bit value and
that's failing.
-- System Information:
Debian Release: 9.4
APT prefers stable-debug
APT policy: (500, 'stable-debug'), (500, 'stable')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 4.9.0-6-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8),
LANGUAGE=en_GB.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
--- End Message ---
--- Begin Message ---
Source: python-fitsio
Source-Version: 0.9.11+dfsg-2
We believe that the bug you reported is fixed in the latest version of
python-fitsio, 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.
Ole Streicher <[email protected]> (supplier of updated python-fitsio 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: SHA512
Format: 1.8
Date: Thu, 05 Jul 2018 11:09:18 +0200
Source: python-fitsio
Binary: python-fitsio python3-fitsio
Architecture: source
Version: 0.9.11+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Astronomy Team
<[email protected]>
Changed-By: Ole Streicher <[email protected]>
Description:
python-fitsio - Python 2 library to read from and write to FITS files
python3-fitsio - Python 3 library to read from and write to FITS files
Closes: 902990
Changes:
python-fitsio (0.9.11+dfsg-2) unstable; urgency=medium
.
* Update VCS fields to use salsa.d.o
* Push compat to 11
* Push Standards-Version to 4.1.5. Change copyright format URL to https
* Fix aligned read (Closes: #902990)
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