Bug#901111: (no subject)

2018-06-20 Thread Rebecca N. Palmer
Control: tags -1 patch It's failing because the documentation build (arch:all) expects the main build (arch:any) to have been done first. Fix: diff -Nru libgpuarray-0.6.9/debian/rules libgpuarray-0.6.9/debian/rules --- libgpuarray-0.6.9/debian/rules 2017-07-26 21:25:20.0 +0100 +++

Bug#871208: python-xarray tests failures

2017-11-23 Thread Rebecca N. Palmer
Control: tags -1 upstream fixed-upstream This appears to be 2 separate bugs, both triggered by using pandas 0.20 and fixed upstream. groupby_bins: https://github.com/pydata/xarray/issues/1386 https://github.com/pydata/xarray/pull/1390 test_sel: this is really a pandas bug (fixed in 0.21, but

Bug#882559: python-xarray FTBFS - GenericNetCDFDataTest.test_cross_engine_read_write_netcdf3 failed

2017-11-23 Thread Rebecca N. Palmer
Package: python3-xarray Version: 0.9.2-1 Severity: serious Control: tags -1 upstream Two netcdf tests fail in current sid (see log below). This is known upstream as https://github.com/pydata/xarray/issues/1721 , according to which the actual problem is that scipy has been writing netcdf files

Bug#918206: Pandas new version (not?)

2019-02-12 Thread Rebecca N. Palmer
Given the soft freeze, the new upstream version is probably no longer an option for buster. Just setting __array_priority__ fails, but with a message that suggests also including the test_analytics part of that upstream commit would work; I haven't yet had time to try this. left = o

Bug#918206: Pandas new version (not?)

2019-02-13 Thread Rebecca N. Palmer
This builds (including build-time tests; haven't tried the autopkgtest). Description: Fix np.array @ DataFrame matrix multiplication Author: jbrockmendel Origin: upstream https://github.com/pandas-dev/pandas/commit/ad2a14f4bec8a004b2972c12f12ed3e4ce37ff52 Bug-Debian: https://bugs.debian.org/91

Bug#923707: statsmodels FTBFS: array |= frame now returns frame

2019-03-03 Thread Rebecca N. Palmer
Source: pandas Version: 0.23+dfsg-2 Severity: serious Control: affects -1 src:statsmodels Control: tags -1 patch The fix for #918206 (setting __array_priority__ to make np.array @ DataFrame work) is technically API breaking: in-place operators arr = np.array(...) df = pd.DataFrame(...) arr +=

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-18 Thread Rebecca N. Palmer
loses: #857683) + * Use versioned symbols (Closes: #848368) + + -- Rebecca N. Palmer Sat, 18 Mar 2017 21:29:25 + + llvm-toolchain-3.9 (1:3.9.1-5) unstable; urgency=medium * Fix the incorrect symlink to scan-build-py (Closes: #856869) diff -Nru llvm-toolchain-3.9-3.9.1/debian/liblldb-X.Y

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-19 Thread Rebecca N. Palmer
:56.0 + @@ -1,3 +1,11 @@ +llvm-toolchain-3.9 (1:3.9.1-5local2) UNRELEASED; urgency=medium + + * Allow '!pointer' in OpenCL (Closes: #857623) + * Add missing liblldb symlink (Closes: #857683) + * Use versioned symbols (Closes: #848368) + + -- Rebecca N. Palmer Sat, 18 Ma

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-19 Thread Rebecca N. Palmer
What do you mean by "not tested" ? You did built it right? Not as of that message. I since tried to build the "version script" option: it failed most of its tests with -- Exit Code: 126 Command Output (stderr): -- E: env var COWDANCER_ILISTFILE not defined E: cowdancer: Fatal, initialize_func

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-19 Thread Rebecca N. Palmer
Looks like this is a known cowdancer issue (#640684 - fixed only for cowbuilder --build, not --login); continuing with LD_PRELOAD= debian/rules build, the LLVM tests pass: Expected Passes: 16742 Expected Failures : 124 Unsupported Tests : 339 Unexpected Passes : 17 Still buildin

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-19 Thread Rebecca N. Palmer
12 clang tests "unexpectedly" fail, but they're the same 12 that do so in the existing package: Failing Tests (12): Clang :: CodeGen/linux-arm-atomic.c Clang :: Driver/arm-cortex-cpus.c Clang :: Driver/arm-features.c Clang :: Driver/arm-ias-Wa.s Clang :: Driver/arm-mfpu.c

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-19 Thread Rebecca N. Palmer
On 19/03/17 16:09, Sylvestre Ledru wrote: Indeed. Are you going to update the symbol file? I just deleted the symbols file to get the build to finish (which it did, and objdump -T confirmed that libLLVM and libclang had versioned symbols), but if you want to keep it, here's the full patch fro

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-19 Thread Rebecca N. Palmer
Rebuilding beignet and mesa against this llvm succeeds, and this beignet works. (beignet is statically linked to LLVM/Clang, so we can't use it as a test of whether non-rebuilt rdeps work.) blender+pocl-opencl-icd still crashes, with the bad jump being from 3.8 to a versioned 3.9 symbol, but

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-03-20 Thread Rebecca N. Palmer
Thanks, but I think we missed something: as packages rebuilt against new (versioned-symbols) LLVM don't work with old LLVM, we need a shlibs bump to make dependencies reflect that (i.e. require upgrading libllvm/libclang before their dependencies). I think that's --- /dev/null +++ a/debian/li

Bug#918090: theano: C-optimized ops fail with "module 'numpy.core.multiarray' has no attribute '_get_ndarray_c_version'"

2019-01-02 Thread Rebecca N. Palmer
Source: theano Version: 1.0.2+dfsg-1 Severity: serious Control: tags -1 patch Many Theano operations include C code for speed; the compilation process uses an undocumented Numpy function to check ABI compatibility. In Numpy 1.16 (recently added to sid), this function is moved, causing all com

Bug#918090: theano: C-optimized ops fail with "module 'numpy.core.multiarray' has no attribute '_get_ndarray_c_version'"

2019-01-09 Thread Rebecca N. Palmer
Control: tags -1 pending Control: tags 918771 pending I intend to upload theano (also containing other changes - see Salsa repo) either tonight or tomorrow night. ...or by calling numpy 1.16 a transition, are you implying you want this minimal fix and nothing else?

Bug#897722: clsparse: ftbfs with GCC-8

2019-02-02 Thread Rebecca N. Palmer
non-instantiable (and hence unusable) as char[4] to char& is an invalid conversion. Older GCC didn't check this until it was attempted, which it isn't (instantiating a class template only instantiates those member functions that are used), but in GCC 8 its existence is an error. Aut

Bug#897752: freefem3d: ftbfs with GCC-8

2019-02-02 Thread Rebecca N. Palmer
template specialization This is probably unused (the use in FatBoundary is commented out), which would explain it only being an FTBFS in GCC 8 and not sooner: https://gcc.gnu.org/gcc-8/porting_to.html#hypothetical-instantiation Author: Rebecca N. Palmer Bug-Debian: https://bugs.debian.org/897752

Bug#897707: arrayfire FTBFS

2019-02-03 Thread Rebecca N. Palmer
Control: tags -1 patch Taking just this part of the upstream patch (the other parts are for code our version doesn't have), together with the Boost fix (which I will file a separate bug for), makes it build. Description: Fix const-related FTBFS with GCC 8 Author: Pradeep "9prady9" Origin: up

Bug#892288: arrayfire test crash

2019-02-03 Thread Rebecca N. Palmer
While this doesn't crash on amd64, valgrind does find a double free in test_index - and a comment in the test says checking that there isn't a double free is the whole point of that test: https://sources.debian.org/src/arrayfire/3.3.2+dfsg1-4/test/index.cpp/#L1255 ==4773== Invalid free() / del

Bug#918206: Pandas new version

2019-02-04 Thread Rebecca N. Palmer
Control: tags -1 fixed-upstream patch The test failure is that np.array @ pd.DataFrame (matrix product) tries to keep both the DataFrame's indices, which fails because the new matrix is a different shape. This appears to be fixed in 0.24.1 from PyPI, but as previously noted, this is a new ma

Bug#921460: dead upstream - keep out of testing

2019-02-05 Thread Rebecca N. Palmer
Package: clsparse Severity: serious X-Debbugs-Cc: debian-scie...@lists.debian.org, ghisv...@gmail.com (plus an identical one for freefem3d) This package is dead upstream, and it has been suggested [0] that because of this, it should not be fixed for buster. I don't know enough about it to have

Bug#921459: dead upstream - keep out of testing

2019-02-05 Thread Rebecca N. Palmer
Package: freefem3d Severity: serious This package is dead upstream, and it has been suggested [0] that because of this, it should not be fixed for buster. I don't know enough about it to have an opinion on this: I am opening this bug as a "don't waste your time fixing it" notice. If this re

Bug#892288: arrayfire test crash

2019-02-05 Thread Rebecca N. Palmer
Control: tags -1 fixed-upstream patch These look like the upstream fixes, though I haven't actually tried them yet. for index: https://github.com/arrayfire/arrayfire/commit/58ac59497b50257631713e689a6b0ddffb73361a for assign: https://github.com/arrayfire/arrayfire/commit/1b18226dfec811e4b7b

Bug#892288: arrayfire test crash

2019-02-06 Thread Rebecca N. Palmer
On i386 with the above patches (plus the gcc8 build fix from the other bug), all tests pass in the build but Test_gfor_cpu fails in the autopkgtest; I don't yet know why.

Bug#840823: execnet test failures

2017-01-08 Thread Rebecca N. Palmer
(I had never heard of this package before your d-d post: I'm looking at it because of the number of to-be-autoremoved reverse dependencies) I can't reproduce any of these test failures: dpkg-buildpackage -us -uc -A in a sid/amd64 cowbuilder --login chroot (build-deps + ccache eatmydata lintian

Bug#848748: #848748: blockdiag FTBFS: caused by new wand?

2017-01-09 Thread Rebecca N. Palmer
Control: tags -1 patch The failing tests are: == FAIL: blockdiag.tests.test_generate_diagram.test_generate(at 0x7f79a5528f28>, 'svg', '/tmp/buildd/blockdiag-1.5.3+dfsg/.pybuild/pythonX.Y_3.5/build/src/blockdiag/tests/diagrams/m

Bug#848748: Sympy(+sagemath+nipy+~30 more) removal ahead

2017-01-10 Thread Rebecca N. Palmer
This involves a lot more than just sympy: the (build-)dependency chain is execnet - sometimes FTBFS (3-4x unreproducible test failures, no known fix; disabling/ignoring the tests in question would probably make it build, but obviously isn't a real fix) ^ | pytest-xdist ^ |(apparently only for

Bug#848748: Sympy(+sagemath+nipy+~30 more) removal ahead

2017-01-10 Thread Rebecca N. Palmer
missing python{,3}-olefile in Build-Depends. There is no such package in unstable - was this a typo? (For me the only failed tests were the two in the bug, and just the patch was enough to fix that.)

Bug#848748: quick Q to Matthias Re: Sympy(+sagemath+nipy+~30 more) removal ahead

2017-01-10 Thread Rebecca N. Palmer
olefile (0.43-1) unstable; urgency=medium * Initial release (closes: #850404). -- Matthias Klose Fri, 06 Jan 2017 07:36:25 +0100 Which makes it too new to get into stretch, so we're not allowed to build-depend on it if we want to stay there. (https://release.debian.org/stretch/rc_policy

Bug#848748: quick Q to Matthias Re: Sympy(+sagemath+nipy+~30 more) removal ahead

2017-01-10 Thread Rebecca N. Palmer
I now also see the no-olefile errors in sid: (This was with a locally built wand - the in-archive one is currently uninstallable due to #850815 - and is one of many with similar messages.) I haven't checked whether it works in stretch (which has an older version of pillow, with an embedded co

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-01-17 Thread Rebecca N. Palmer
Control: tags -1 patch One way to reproduce this bug: # apt-get install pocl-opencl-icd blender $ gdb blender open User Preferences -> System This promptly crashes; beignet-opencl-icd 1.2.1-1 (LLVM 3.8, like pocl) also triggers it, but beignet-opencl-icd 1.2.1-2 and mesa-opencl-icd (LLVM 3.9, l

Bug#848368: llvm-toolchain-3.9: Please add ELF symbols versions to the libraries

2017-01-22 Thread Rebecca N. Palmer
On 22/01/17 21:07, Sylvestre Ledru wrote: > , you haven't pass the arg to LDFLAGS to make sure that libclang or > liblldb get it, > is that on purpose? My original intent was to avoid passing it to those parts of LLVM that already use a "version" (actually which-symbols-are-public) script, as I su

Bug#848748: intent to NMU #848748: blockdiag FTBFS

2017-01-22 Thread Rebecca N. Palmer
kdiag (1.5.3+dfsg-1.1) unstable; urgency=medium + + * Non-maintainer upload. + * Don't fail tests on a harmless wand warning. Closes: #848478 + + -- Rebecca N. Palmer Sun, 22 Jan 2017 22:13:59 + + blockdiag (1.5.3+dfsg-1) unstable; urgency=medium * New upstream release. Close

Bug#974792: Proposed RM: beignet -- RoM; FTBFS with LLVM > 9, replaced by intel-opencl-icd

2023-06-18 Thread Rebecca N. Palmer
beignet FTBFS with LLVM > 9 (#974792). beignet uses libllvm/libclang heavily enough that it usually has this kind of bug on a new LLVM release, but this time my attempts to fix it failed (see the Salsa CI logs). It is abandoned upstream and mostly replaced by intel-opencl-icd. (This is not a

Bug#974792: Proposed RM: beignet -- RoM; FTBFS with LLVM > 9, replaced by intel-opencl-icd

2023-06-19 Thread Rebecca N. Palmer
Additional information: As a rough estimate of how much speed this would cost on older hardware, I previously measured beignet as 8-16x faster than pocl (but this will obviously depend on hardware and application). However, beignet (on hardware that can't use intel-opencl-icd) is limited to s

Bug#1030096: #1030096 dask.distributed autopkgtest fail

2023-02-04 Thread Rebecca N. Palmer
I have an attempt to fix this in Salsa now (in my fork), but it hasn't had time to run the tests yet, so I don't know whether it works. Note the above mention that if we lose dask.distributed then we lose Spyder, which makes this a bigger issue than I initially thought.

Bug#1030096: #1030096 dask.distributed autopkgtest fail

2023-02-04 Thread Rebecca N. Palmer
That removed most of the test failures, but there seem to be a few apparently random ones left (2 runs both failed, but with different errors). On 04/02/2023 21:35, Andreas Tille wrote: Any reason to not push to master directly? I don't do that with packages that aren't mine. Also see above.

Bug#1030096: #1030096 dask.distributed autopkgtest fail

2023-02-05 Thread Rebecca N. Palmer
I currently have this in a state where it sometimes succeeds and sometimes doesn't: https://salsa.debian.org/rnpalmer-guest/dask.distributed/-/tree/fix1030096 Tests I've seen to fail multiple times (and don't have a fix for): test_balance_expensive_tasks[enough work to steal] https://salsa.debia

Bug#1030096: Any ideas Re: #1030096 dask.distributed intermittent autopkgtest fail ?

2023-02-06 Thread Rebecca N. Palmer
(Background: the pandas + dask transition broke dask.distributed and it was hence removed from testing; I didn't notice at the time that if we don't get it back in we lose Spyder.) On 05/02/2023 21:44, Rebecca N. Palmer wrote: I currently have this in a state where it sometimes su

Bug#1030096: Any ideas Re: #1030096 dask.distributed intermittent autopkgtest fail ?

2023-02-06 Thread Rebecca N. Palmer
I agree that xfailing the tests *may* be a reasonable solution. I'm only saying that it should be done by someone with more idea than me of whether these particular tests are important, because blindly xfailing everything that fails is effectively not having tests. If we do choose that approa

Bug#1030096: Any ideas Re: #1030096 dask.distributed intermittent autopkgtest fail ?

2023-02-06 Thread Rebecca N. Palmer
On 07/02/2023 03:20, Diane Trout wrote: What's your test environment like? Salsa CI. I don't think head is hugely different from what was released in -1. The diff looks like Andreas adjusted the dask dependency version, configured a salsa CI run, and added some upstream metadata files That

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-08 Thread Rebecca N. Palmer
I think I got the code to detect if IPv6 is available to work correctly so I could set the DISABLE_IPV6 environment variable that dask.distrubted supports. This probably refers to https://salsa.debian.org/python-team/packages/dask.distributed/-/blob/debian/master/debian/tests/run-tests#L11 T

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-08 Thread Rebecca N. Palmer
On 08/02/2023 22:09, Diane Trout wrote: I just got back a passed from salsa. So does anyone want to make any more changes? Or should we release this version? The *maybe* remaining issue is that test_balance_expensive_tasks[enough work to steal] seems to fail repeatedly when it fails, so if we wa

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-08 Thread Rebecca N. Palmer
On 09/02/2023 06:36, Diane Trout wrote: Also there's still some flaky tests as the rebuild triggered by my just committing the changelog release had a failure in "test_release_retry" I don't think I've seen that particular one before, though like several others it's a warning being treated as

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-09 Thread Rebecca N. Palmer
On 09/02/2023 17:07, Diane Trout wrote: Would it make sense to drop those errors back to warnings, and do you know enough about the setup.cfg language to do it quickly? Plausibly yes but I don't actually know, and remove the 'error' line at setup.cfg:60. I went ahead and requested anoth

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-09 Thread Rebecca N. Palmer
On 09/02/2023 21:33, Diane Trout wrote: The place to ask is debian-release; no comment on the likely result. I'll try to ask. Looking at the old logs, I think the old "passing" test *didn't actually run* the tests (just collected them, which was enough to fail on a dask/dask.distributed mi

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-09 Thread Rebecca N. Palmer
Upstream's reason for treating warnings as errors is just generic 'find potential problems' (https://github.com/dask/distributed/issues/6048). On 09/02/2023 21:33, Diane Trout wrote: That worked, but armel (test_steal_twice), armhf (something outright crashing) and s390x (lots) all failed. Ar

Bug#1030096: dask.distributed intermittent autopkgtest fail

2023-02-10 Thread Rebecca N. Palmer
On 10/02/2023 06:41, Andreas Tille wrote: Am Fri, Feb 10, 2023 at 08:44:01AM +0530 schrieb Nilesh Patra: But I am not sure if this counter would be set to 2 days (from 5 days) or not -- will likely need to ask release team. As far as I observed the migration time is now 5 days (no matter wheth

Bug#1031414: clinfo breaks libgpuarray autopkgtest on i386: numerical deltas

2023-02-16 Thread Rebecca N. Palmer
Control: reassign -1 src:pocl,src:libgpuarray Control: found -1 pocl/3.1-3 Control: found -1 libgpuarray/0.7.6-13 Control: retitle -1 libgpuarray: i386 test fail with new pocl The trigger is probably pocl, not clinfo. I don't yet know whether the bug is in pocl or libgpuarray.

Bug#1031414: clinfo breaks libgpuarray autopkgtest on i386: numerical deltas

2023-02-17 Thread Rebecca N. Palmer
Possibly useful here: gdb disassemble works inside pocl kernels, see #920497 for an example.

Bug#1031705: pymatgen: 7th item of test_babel randomly hangs autopkgtest

2023-02-20 Thread Rebecca N. Palmer
Package: python3-pymatgen Severity: serious Control: affects -1 python3-pandas The autopkgtest sometimes times out, and when it does, the last line is io/tests/test_babel.py and 6 'pass' dots, implying that the 7th item hung. All known instances are on amd64.

Bug#1031706: optuna: test_create_new_trial randomly fails on s390x

2023-02-20 Thread Rebecca N. Palmer
Package: python3-optuna Severity: serious Control: affects -1 python3-pandas test_create_new_trial (both parts) sometimes fails on s390x, failing the autopkgtest. It might make sense to remove this package on s390x, if it isn't reasonable to actually fix this.

Bug#1026539: How much do we lose if we remove theano (+keras, deepnano, invesalius)?

2023-03-01 Thread Rebecca N. Palmer
I agree that switching to Aesara is probably the only reasonable option other than removal. (I'd given up on trying to fix 1.0, and was intending to let removal happen.) However, it's a much bigger change than is normally allowed in bookworm at this point. (1.1 includes multiple breaking cha

Bug#1026539: Bug#1027215: Bug#1026539: How much do we lose if we remove theano (+keras, deepnano, invesalius)?

2023-03-02 Thread Rebecca N. Palmer
On 02/03/2023 10:38, Andreas Tille wrote: I admit I do not see any good reason to stick to the old version if we decided before that keras/deepnano are no real blockers to even drop theano. Thus I was considering it more promising to spent my time on the latest version. 1.1.2 isn't the latest

Bug#1027215: Bug#1026539: How much do we lose if we remove theano (+keras, deepnano, invesalius)?

2023-03-03 Thread Rebecca N. Palmer
On 03/03/2023 06:00, Andreas Tille wrote: Ahh, so aesara is not really a "fork" but a "rename"? The original is abandoned (no new development since 2017, and now mostly unmaintained, which is probably why it has this kind of bug). Aesara is a continuation by a new upstream (possibly one that

Bug#1033589: python3-theano: module 'numpy' has no attribute 'bool'.

2023-03-27 Thread Rebecca N. Palmer
While that particular problem is easy to fix, there are other incompatibilities that aren't (see #1026539, #1027215) and I intend to let autoremoval happen.

Bug#1029232: dask.distributed: broken by version mismatch with dask

2023-01-20 Thread Rebecca N. Palmer
Package: python3-distributed Version: 2022.02.0+ds1-3 Severity: serious dask.distributed has been failing its autopkgtests since dask was upgraded to 2022.12.1. This is the expected result of upgrading one but not the other: I'd seen the same in my test PPA, and the upstream setup.py/requirem

Bug#1029232: dask.distributed: broken by version mismatch with dask

2023-01-20 Thread Rebecca N. Palmer
Would you like some help? If so, please push what you currently have to Salsa so we can see it. (No promises - #1029251 doesn't look like a big job but I might be wrong about that.)

Bug#1029251: pandas: FTBFS: tests failed

2023-01-21 Thread Rebecca N. Palmer
Control: tags -1 pending Looks like rounding error in a test; ignored in Salsa.

Bug#1004869: python-xarray autopkgtest fail on i386

2023-01-23 Thread Rebecca N. Palmer
Control: reopen -1 Control: found -1 2023.01.0-1 This patch was dropped in the next upload (probably by accident), and hence this bug has reappeared. It is currently listed as blocking pandas from testing, though I'm not sure why (it isn't obvious why pandas and xarray would have to go togeth

Bug#1017573: patch Re: ulmo broken by pandas 1.4+

2023-01-28 Thread Rebecca N. Palmer
Control: tags -1 patch Control: unblock -1 by 1011225 (Block possibly added by mistake - these don't look related.) This patch is now available as a Salsa merge request, and passed build+autopkgtest there.

Bug#1030208: statsmodels: FTBFS with scipy 1.10 on 32-bit: int64 -> int32 cast

2023-01-31 Thread Rebecca N. Palmer
Package: python3-statsmodels Version: 0.13.5+dfsg-4 Severity: serious Since scipy 1.10, some statsmodels tests fail on 32-bit with a message that int64 -> int32 casting is unsafe. I haven't yet had time to investigate further.

Bug#1030208: Acknowledgement (statsmodels: FTBFS with scipy 1.10 on 32-bit: int64 -> int32 cast)

2023-02-01 Thread Rebecca N. Palmer
Control: merge -1 1030210 1030221 Not obviously known upstream. It's due to the test passing an int64 array to np.bincount (which casts to native-size int). Hence, we can probably get it to pass by explicitly casting to int32 in the test code, but I haven't tried that yet. I don't know exac

Bug#1027215: Proposed RM: theano, keras, deepnano -- broken by numpy 1.24, theano mostly abandoned upstream

2023-07-23 Thread Rebecca N. Palmer
Control: reopen -1 1026539 theano has been mostly abandoned upstream since 2018. (The Aesara fork is not abandoned, but includes interface changes including the import name, so would break reverse dependencies not specifically altered for it.) It is currently broken (FTBFS due to multiple te

Bug#1041803: hyperspy: FTBFS test_image fails

2023-07-23 Thread Rebecca N. Palmer
Package: hyperspy Version: 1.7.3-1 Severity: serious hyperspy currently FTBFS with several failing tests: https://launchpadlibrarian.net/678551154/buildlog_ubuntu-mantic-amd64.hyperspy_1.7.3-1_BUILDING.txt.gz

Bug#1026539: theano FTBFS

2023-01-03 Thread Rebecca N. Palmer
Please do *not* upload theano 1.12 to unstable - it's the Aesara version, which may seriously break backward compatibility. I haven't had time to properly look at this bug yet.

Bug#1027254: dask and pandas 1.5

2023-01-09 Thread Rebecca N. Palmer
To get the new upstream version to work, dask_sphinx-theme, dask and dask.distributed all need to be updated, in that order. Tests here: https://launchpad.net/~rebecca-palmer/+archive/ubuntu/dask2022p12v2/+packages dask didn't run its tests (PPAs only build, not autopkgtest), and dask.distribu

Bug#1027254: dask and pandas 1.5

2023-01-09 Thread Rebecca N. Palmer
(I meant to send that to the dask/pandas bug, which is #1025393, but both of them are potential reasons to update dask.) The intake issue is now https://github.com/dask/dask/issues/9813 (They're planning to fix it in intake rather than dask, but we might not be allowed to do that after the 12th

Bug#1028359: pygpu: fails to import in numpy 1.24

2023-01-09 Thread Rebecca N. Palmer
Package: python3-pygpu Version: 0.7.6-12 Severity: grave numpy 1.24 no longer has np.bool, which makes pygpu fail to import: pygpu/dtypes.py:74: in _fill_dtype_registry register_dtype(np.bool, ["ga_bool", "bool"]) numpy/__init__.py:284: in __getattr__ raise AttributeError("module {!r} ha

Bug#1028373: pandas: test-failing warnings with numpy 1.24

2023-01-10 Thread Rebecca N. Palmer
Package: python3-pandas Version: 1.5.2+dfsg-4 Severity: serious Looks like the numpy 1.24 issues I knew about weren't the only ones. Fix in progress in Salsa.

Bug#1027215: How much do we lose if we remove theano (+keras, deepnano, invesalius)?

2023-01-14 Thread Rebecca N. Palmer
theano has been mostly abandoned upstream since 2018. (The Aesara fork is not abandoned, but includes interface changes including the import name, so would break reverse dependencies not specifically altered for it.) Its reverse dependencies are keras, deepnano and invesalius. It is currently

Bug#1028667: dask BD-Uninstallable

2023-01-14 Thread Rebecca N. Palmer
Control: retitle -1 dask: B-D on python-numpy-doc which no longer exists Control: tags -1 pending The python-numpy-doc error is because that package no longer exists. This build-dependency has already been removed in Salsa. However, that version doesn't build the dask documentation due to othe

Bug#1028667: dask BD-Uninstallable

2023-01-15 Thread Rebecca N. Palmer
Probably fixed - see my merge request on Salsa.

Bug#1028667: dask BD-Uninstallable

2023-01-16 Thread Rebecca N. Palmer
On 16/01/2023 07:22, Diane Trout wrote: On Sun, 2023-01-15 at 14:42 -0800, Diane Trout wrote: On Sun, 2023-01-15 at 18:16 +, Rebecca N. Palmer wrote: Probably fixed - see my merge request on Salsa. I'd tried to build versions of dask from 2022.03 - 2022.06 and they all failed

Bug#931888: pymvpa2 FTBFS: test_assert_objectarray_equal / test_vector_alignment_find_rotation_illegal_inputs

2019-07-11 Thread Rebecca N. Palmer
Source: pymvpa2 Version: 2.6.5-1 Severity: serious This package FTBFS in sid (plain dpkg-buildpackage) with these test failures (which are different from the ones in #906399, but the same as the ones in reproducible-builds). This bug was found during statsmodels 0.9 transition testing, but al

Bug#988142: pandas FTBFS in buster: test failures

2021-05-09 Thread Rebecca N. Palmer
This is _probably_ the same issue that 0.23.3+dfsg-3 has had since it was new: some tests run in all installed locales, and on reproducible-builds (but not buildds without a locales-all dependency) this includes a few with no text encoding. The underlying issue is in Python stdlib, and is an e

Bug#958700: pocl: nested(?) dlopen fails

2020-04-26 Thread Rebecca N. Palmer
Control: retitle -1 pocl: nested(?) dlopen fails Control: reassign -1 libpocl2 1.5-2 Control: affects -1 src:libgpuarray python3-pyopencl ocl-icd-libopencl1 dlopen()s ICDs (at https://sources.debian.org/src/ocl-icd/2.2.12-4/ocl_icd_loader.c/#L184). With pocl 1.5, this dlopen() fails in some co

Bug#959615: theano: FTBFS: make[2]: pegjs: Command not found

2020-05-03 Thread Rebecca N. Palmer
This is because /usr/bin/pegjs exists in node-pegjs 0.7 but not 0.10. (/usr/share/nodejs/bin/pegjs exists instead; I have not yet checked whether it works.) pegjs maintainer: is this an intentional change or a mistake? The upstream documentation still mentions the command: https://sources.de

Bug#959758: theano: FTBFS with pegjs 0.10

2020-05-04 Thread Rebecca N. Palmer
Package: python3-theano Version: 1.0.4+dfsg-2 Severity: serious #graphlib-dot.js make -C debian/missing-source/graphlib-dot --always-make dist make[2]: Entering directory '/build/theano-1.0.4+dfsg/debian/missing-source/graphlib-dot' pegjs -e 'module.exports' src/dot-grammar.pegjs lib/dot-gramma

Bug#959597: python-schema-salad FTBFS: python-rdflib-jsonld too new

2020-05-11 Thread Rebecca N. Palmer
Control: retitle -1 schema-salad FTBFS: python-rdflib-jsonld too new Control: tags -1 fixed-upstream patch This explicit version check was relaxed (without other changes) in the next upstream commit, though I haven't tested this change: https://github.com/common-workflow-language/schema_salad/

Bug#979621: pandas: autopkgtest regression in testing: No tables found

2021-01-11 Thread Rebecca N. Palmer
Control: tags -1 fixed-upstream pending The trigger was a change in the outside world, not Debian testing: the tests (of HTML table parsing) were trying to access a web page that no longer exists. Fixed in Salsa.

Bug#972015: Bug#972033: python3.9 pandas

2020-10-18 Thread Rebecca N. Palmer
Control: tags -1 pending Control: forwarded -1 https://github.com/pandas-dev/pandas/issues/37217 This appears to fix it, though I'm not yet sure if it's a good idea I was trying to find upstream's fix and use that instead, but it now looks like they don't have one, and probably didn't know th

Bug#972469: joblib: TerminatedWorkerError, AttributeError: '_SafeQueue' object has no attribute '_notempty' with Python 3.9

2020-10-18 Thread Rebecca N. Palmer
Package: python3-joblib Tags: fixed-upstream Control: affects -1 scikit-learn statsmodels Control: block 966426 by -1 Severity: serious Justification: causes other packages to FTBFS Our current version of joblib is incompatible with Python 3.9, which was recently added to the supported versions

Bug#969648: dask, pandas 1.1

2020-10-19 Thread Rebecca N. Palmer
The upstream patch doesn't even apply as-is; this version does, but I don't have time right now to actually test it. There's also a circular dependency problem, as dask indirectly build-depends on itself and my new pandas makes it uninstallable. Description: pandas 1.1 compatibility Origin:

Bug#969648: dask, pandas 1.1

2020-10-19 Thread Rebecca N. Palmer
ertionError diff -Nru dask-2.11.0+dfsg/debian/changelog dask-2.11.0+dfsg/debian/changelog --- dask-2.11.0+dfsg/debian/changelog 2020-02-26 21:01:52.0 + +++ dask-2.11.0+dfsg/debian/changelog 2020-10-19 08:38:20.0 +0100 @@ -1,3 +1,10 @@ +dask (2.11.0+dfsg-1.1) UNRELEASED; urgency=me

Bug#969648: dask, pandas 1.1

2020-10-19 Thread Rebecca N. Palmer
Or maybe not an actual regression...it's a ~5e-7 difference and one of the things the patch does (at around dask/dataframe/tests/test_rolling.py:270) is _tighten_ the tolerance on that test. I have filed a separate bug (#972516) for the fsspec issues.

Bug#969648: marked as pending in dask

2020-10-19 Thread Rebecca N. Palmer
That looks like my earlier version, which fails with NameError.

Bug#969648: marked as pending in dask

2020-10-19 Thread Rebecca N. Palmer
sorry, not any more. On 19/10/2020 19:57, Rebecca N. Palmer wrote: That looks like my earlier version, which fails with NameError.

Bug#969648: dask, pandas 1.1

2020-10-19 Thread Rebecca N. Palmer
On 19/10/2020 20:07, Stefano Rivera wrote: Hi Rebecca (2020.10.19_11:51:33_-0700) Or maybe not an actual regression...it's a ~5e-7 difference and one of the things the patch does (at around dask/dataframe/tests/test_rolling.py:270) is _tighten_ the tolerance on that test. Hrm, I didn't see th

Bug#969648: BD-Uninstallable Re: dask, pandas 1.1

2020-10-19 Thread Rebecca N. Palmer
A bot wrote: Dependency installability problem for dask on all: dask build-depends on: - python3-pandas:amd64 (>= 0.19.0) dask build-depends on: - python3-distributed:amd64 python3-distributed depends on: - python3-dask:amd64 (>= 2.9.0) python3-pandas conflicts with: - python3-dask:amd64 (< 2.11

Bug#972246: numba, python3.9, dolfinx

2020-11-02 Thread Rebecca N. Palmer
Control: affects -1 + pynpoint python-loompy umap-learn Control: affects -1 + dolfinx python-numpy-groupies As this bug cannot immediately be fixed, numba may be removed from testing to unblock the python3.9 transition (#966426). (If any of the failed tests are silently wrong answers, please d

Bug#973115: cfgrib FTBFS

2020-11-05 Thread Rebecca N. Palmer
Confirmed, still exists in pandas 1.1.4, not obviously known upstream. #969648 was also a datetime issue that appeared during the pandas 1.0 -> 1.1 transition, but I don't know if they're related. (cfgrib wasn't tested as part of that transition because it doesn't directly depend on pandas.)

Bug#973115: cfgrib FTBFS

2020-11-05 Thread Rebecca N. Palmer
Control: tags -1 upstream cfgrib's upstream CI is failing, and started failing when it started using pandas 1.1.x.

Bug#975931: [Pkg-opencl-devel] Bug#975931: pocl breaks libgpuarray autopkgtest on armhf: segmentation fault

2020-11-27 Thread Rebecca N. Palmer
Existing discussion (in what was originally a different bug): https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=974797#28 This bug might also be in llvm or clblas.

Bug#976573: pandas: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.8 3.9" returned exit code 13

2020-12-06 Thread Rebecca N. Palmer
On 05/12/20 at 13:47 +0100, Lucas Nussbaum wrote: Tags: bullseye sid ftbfs Usertags: ftbfs-20201205 ftbfs-bullseye Does this imply that it was also tested and failed in bullseye? The log is marked unstable, and the test failures in it are #976620, which is probably unstable-only.

Bug#976620: xlrd: if defusedxml installed, AttributeError: 'ElementTree' object has no attribute 'getiterator'

2020-12-09 Thread Rebecca N. Palmer
I have applied this workaround to pandas. However, this only makes pandas use xlrd less; this bug still exists in other users of xlrd when defusedxml is installed. By default this includes python3-glue (the original reason for upgrading xlrd), via the Recommends/Depends chain python3-glue ->

Bug#860805: beignet-opencl-icd: OpenCL fails with: drm_intel_gem_bo_context_exec() failed: Device or resource busy

2017-04-29 Thread Rebecca N. Palmer
The above patch is now in Alioth, but please do *not* upload it yet. $ grep '^model name' /proc/cpuinfo | head -n1 model name : Intel(R) Core(TM) i5-4200U CPU @ 1.60GHz ... 4200U is [Haswell] so I guess I can do the testing, right? If your integrated GPU is enabled (it might not be if y

Bug#860805: [Pkg-opencl-devel] Bug#860805: Could we set bug #860805 against beignet-opencl-icd to stretch-is-blocker?

2017-05-01 Thread Rebecca N. Palmer
Has anyone tried the clFFT test I requested above? Nothing further from upstream.

Bug#860805: [Pkg-opencl-devel] Bug#860805: beignet-opencl-icd: OpenCL fails with: drm_intel_gem_bo_context_exec() failed: Device or resource busy

2017-05-02 Thread Rebecca N. Palmer
On 02/05/17 07:57, Andreas Tille wrote: I can confirm that beignet-dev_1.3.0-2 produces a lot of errors which vanished when using said status from Git. Good so far. - the clFFT test from https://bugs.freedesktop.org/show_bug.cgi?id=100639 This needs a small change to work in sid (its reporter

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