bob issueshttps://gitlab.idiap.ch/groups/bob/-/issues2017-10-24T05:02:23Zhttps://gitlab.idiap.ch/bob/bob.io.base/-/issues/3HDF5 files for Machines and version numbering2017-10-24T05:02:23ZAndré AnjosHDF5 files for Machines and version numbering*Created by: tiagofrepereira2012*
Original issue here: https://github.com/idiap/bob/issues/142*Created by: tiagofrepereira2012*
Original issue here: https://github.com/idiap/bob/issues/142https://gitlab.idiap.ch/bob/bob.io.base/-/issues/2Can't write one-element ndarray in HDF52017-10-24T05:02:23ZAndré AnjosCan't write one-element ndarray in HDF5*Created by: tiagofrepereira2012*
Issue copied from here: https://github.com/idiap/bob/issues/165*Created by: tiagofrepereira2012*
Issue copied from here: https://github.com/idiap/bob/issues/165https://gitlab.idiap.ch/bob/bob.io.base/-/issues/1check for float32 not working => creating "segmentation fault"2017-10-24T05:02:23ZAndré Anjoscheck for float32 not working => creating "segmentation fault"*Created by: khoury*
Hello,
I was getting "segmentation fault" lately while developing some code.
The reason is mainly because the check of the data format is not working properly.
Thank you,
Elie
*Created by: khoury*
Hello,
I was getting "segmentation fault" lately while developing some code.
The reason is mainly because the check of the data format is not working properly.
Thank you,
Elie
https://gitlab.idiap.ch/bob/bob.db.casia_fasd/-/issues/4Refactoring 20162017-10-24T05:59:01ZTiago de Freitas PereiraRefactoring 2016Hi,
This dataset was not refactored and it is not in our CI.
@andre.anjos , you are the maintainer of this one.
Do you want to archive it?
@amohammadi and @sbhatta are you interested in this dataset?
ThanksHi,
This dataset was not refactored and it is not in our CI.
@andre.anjos , you are the maintainer of this one.
Do you want to archive it?
@amohammadi and @sbhatta are you interested in this dataset?
Thankshttps://gitlab.idiap.ch/bob/bob.db.casia_fasd/-/issues/3Face annotations are not shipped on PyPI2017-10-24T05:59:01ZAndré AnjosFace annotations are not shipped on PyPI*Created by: tiagofrepereira2012*
Basically the annotations are not marked to be shipped in the file MANIFEST.in
The annotations has 2.1MB, so it is not an issue for PyPI.
Weird that no one saw this after 5 releases.*Created by: tiagofrepereira2012*
Basically the annotations are not marked to be shipped in the file MANIFEST.in
The annotations has 2.1MB, so it is not an issue for PyPI.
Weird that no one saw this after 5 releases.https://gitlab.idiap.ch/bob/bob.db.casia_fasd/-/issues/1Problem with the cross_valid_foldobjects method2017-10-24T05:59:01ZAndré AnjosProblem with the cross_valid_foldobjects method*Created by: tiagofrepereira2012*
There is a problem when you try to fetch the data using the method cross_valid_foldobjects with the argument types=None (the default value provided). The line above makes the script stop. This method on...*Created by: tiagofrepereira2012*
There is a problem when you try to fetch the data using the method cross_valid_foldobjects with the argument types=None (the default value provided). The line above makes the script stop. This method only accepts a tuple in the "type" argument.
import xbob.db.casia_fasd
db = xbob.db.casia_fasd.Database()
a,b = db.cross_valid_foldobjects(cls='attack', types=None, fold_no=1)
This method should work similar to the method "objects"m which accepts None in the "types" argument.
https://gitlab.idiap.ch/bob/bob.paper.isba2018_entropy/-/issues/1Improvement suggestions2017-10-24T13:22:21ZAndré AnjosImprovement suggestionsWork in this package looks great�! Congrats.
Here are some tips to make it even better:
1. Please add our "Bob" citations to your README file, since your work is completely based on it
2. Ask the user to install "miniconda" instead of ...Work in this package looks great�! Congrats.
Here are some tips to make it even better:
1. Please add our "Bob" citations to your README file, since your work is completely based on it
2. Ask the user to install "miniconda" instead of "conda"
4. In `setup.py`, please remove my name off the header. Actually, remove the whole header, we don't need it. Just leave the first two lines.
5. In your `requirements.txt`, remove all indirect dependencies, use only stuff you *directly* depend on
6. Your package structure will be cleaner if you remove the `code` subdirectory in `bob.paper.isba2018_entropy`. Just put the contents of the package on the root of the package for clarity
7. Your `buildout.cfg` does not need `mr.developer`, or any other associated settings. Make it as clean as our stock template https://gitlab.idiap.ch/bob/bob.admin/blob/master/templates/simple-buildout.cfg
8. A suggestion: why don't you suggest `pip install bob.paper.isba2018_entropy` instead of using both `git` and `buildout`? Isn't that easier? That also reduces the amount of dependencies the final user environment needs.Vedrana KRIVOKUCAVedrana KRIVOKUCAhttps://gitlab.idiap.ch/bob/bob.bio.base/-/issues/96The option `--allow-missing-files` is not propagated to all toolchain elements2017-10-24T16:03:01ZTiago de Freitas PereiraThe option `--allow-missing-files` is not propagated to all toolchain elementsI think we must propagate `--allow-missing-files` options to all elements in our base toolchain.
One way to do that is to work this out in this function https://gitlab.idiap.ch/bob/bob.bio.base/blob/54be30749e89a1e99a7fb267787d81ea4e053...I think we must propagate `--allow-missing-files` options to all elements in our base toolchain.
One way to do that is to work this out in this function https://gitlab.idiap.ch/bob/bob.bio.base/blob/54be30749e89a1e99a7fb267787d81ea4e053314/bob/bio/base/utils/io.py#L178
Related with https://gitlab.idiap.ch/bob/bob.bio.gmm/issues/21https://gitlab.idiap.ch/bob/bob.bio.base/-/issues/71line code starts with ./bin/2017-10-24T18:02:42ZAlain KOMATYline code starts with ./bin/bob/bio/base/script/grid_search.py line 307
```
f.write('bin/verify.py ')
```bob/bio/base/script/grid_search.py line 307
```
f.write('bin/verify.py ')
```May 2017 Hackathonhttps://gitlab.idiap.ch/bob/bob.db.voxforge/-/issues/6Documentation references bob.bio.speaker2017-10-24T21:28:55ZAndré AnjosDocumentation references bob.bio.speakerBut, of course, this package doesn't exist.
This package is also depends on `bob.bio.csu`, but that is not available in the nightlies, which generates a warning (non-fatal).
Would be good to get that fixed.But, of course, this package doesn't exist.
This package is also depends on `bob.bio.csu`, but that is not available in the nightlies, which generates a warning (non-fatal).
Would be good to get that fixed.May 2017 Hackathonhttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/27`Algorithm.read_probe` should be removed2017-10-25T00:08:37ZManuel Günthersiebenkopf@googlemail.com`Algorithm.read_probe` should be removedAny `read_probe` function of any algorithm is deprecated and no longer used, after bob/bob.bio.base!78 is merged. It would be good to remove them.
This includes changing the according test cases, which need to be updated before bob/bob...Any `read_probe` function of any algorithm is deprecated and no longer used, after bob/bob.bio.base!78 is merged. It would be good to remove them.
This includes changing the according test cases, which need to be updated before bob/bob.bio.base!78 can be merged.Manuel Günthersiebenkopf@googlemail.comManuel Günthersiebenkopf@googlemail.comhttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/21Broken nightlies2017-10-25T00:08:37ZAndré AnjosBroken nightliesOur nightly builds are currently broken: https://gitlab.idiap.ch/bob/bob.nightlies/builds/45084/raw
Because there is an unsatistified dependence from this package to bob.db.cpqd_replay.
In order to add a package as a dep to another one...Our nightly builds are currently broken: https://gitlab.idiap.ch/bob/bob.nightlies/builds/45084/raw
Because there is an unsatistified dependence from this package to bob.db.cpqd_replay.
In order to add a package as a dep to another one which is already in the nightlies, one must also add the dependence to the nightlies. In this case, please add it to a branch in the file `extra.txt`.Pavel KORSHUNOVPavel KORSHUNOVhttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/18Error while running experiment using amicorpus database2017-10-25T00:08:37ZAlain KOMATYError while running experiment using amicorpus databaseI am trying to run the following experiment on ami database
./bin/verify.py -d 'ami' -p 'energy-2gauss' -e 'mfcc-60' --algorithm 'gmm' -s ami_ubm_gmm --groups {dev,eval} -R '/idiap/user/akomaty/AMI-test/' -T '/idiap/temp/akomaty/AMI-tes...I am trying to run the following experiment on ami database
./bin/verify.py -d 'ami' -p 'energy-2gauss' -e 'mfcc-60' --algorithm 'gmm' -s ami_ubm_gmm --groups {dev,eval} -R '/idiap/user/akomaty/AMI-test/' -T '/idiap/temp/akomaty/AMI-test/' -vvv
The error I am getting is:
energy_array = e(rate_wavsample[1])
TypeError: `bob.ap.Energy' only supports 1D 64-bit float arrays for input array `input'.
While debugging I found that
rate_wavsample[1] =
array([[ 0., 0.],
[ -2., -2.],
[ 0., 0.],
...,
[-26., -26.],
[-27., -27.],
[-28., -28.]])
A screenshot is attached.
Someone could have an idea why I am getting a 2D array instead of 1D? I could't trace the origin of this problem.
![Energy_2Gauss.py](/uploads/4173019c128fcac6d178911130e82bb5/Energy_2Gauss.py.png)https://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/17Test on Mac OSX fail due to some wrong path in conda environment2017-10-25T00:08:37ZPavel KORSHUNOVTest on Mac OSX fail due to some wrong path in conda environmentThe tests failed on Mac OSX, for instance: https://gitlab.idiap.ch/bob/bob.bio.spear/builds/15998
Here are more details:
https://gitlab.idiap.ch/bob/bob.bio.spear/builds/15989
I suspect that something happened just now, as 20 minutes ...The tests failed on Mac OSX, for instance: https://gitlab.idiap.ch/bob/bob.bio.spear/builds/15998
Here are more details:
https://gitlab.idiap.ch/bob/bob.bio.spear/builds/15989
I suspect that something happened just now, as 20 minutes ago tests were passing for the same code (before the merge), like here:
https://gitlab.idiap.ch/bob/bob.bio.spear/builds/15953
So, something happened in the last 20 minutes? Can you @amohammadi and @andre.anjos check?Amir MOHAMMADIAmir MOHAMMADIhttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/15Please change the init signature in BioAudioFile2017-10-25T00:08:37ZAmir MOHAMMADIPlease change the init signature in BioAudioFilesince it is already merged here:
https://gitlab.idiap.ch/bob/bob.bio.spear/merge_requests/14/diffs#368361dc780cc71a5d737a62730b9de9c9168e3d_0_16since it is already merged here:
https://gitlab.idiap.ch/bob/bob.bio.spear/merge_requests/14/diffs#368361dc780cc71a5d737a62730b9de9c9168e3d_0_16Refactoring 2016 and gitlab migration milestoneTiago de Freitas PereiraTiago de Freitas Pereirahttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/14Please remove database configurations2017-10-25T00:08:37ZAmir MOHAMMADIPlease remove database configurations```
======================================================================
ERROR: bob.bio.base.test.test_scripts.test_resources
----------------------------------------------------------------------
Traceback (most recent call last):...```
======================================================================
ERROR: bob.bio.base.test.test_scripts.test_resources
----------------------------------------------------------------------
Traceback (most recent call last):
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/bob/bio/base/test/test_scripts.py", line 322, in test_resources
databases([])
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/bob/bio/base/script/resources.py", line 62, in databases
databases = bob.bio.base.utils.resources.database_directories(replacements=args.database_directories_file)
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/bob/bio/base/utils/resources.py", line 219, in database_directories
db = load_resource(entry_point.name, 'database')
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/bob/bio/base/utils/resources.py", line 116, in load_resource
return entry_points[0].load()
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/setuptools-23.0.0-py2.7.egg/pkg_resources/__init__.py", line 2229, in load
return self.resolve()
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/setuptools-23.0.0-py2.7.egg/pkg_resources/__init__.py", line 2235, in resolve
module = __import__(self.module_name, fromlist=['__name__'], level=0)
File "/Users/buildbot/work/gitlab-ci/work/gitlab-ci/f6f95b82/0/bob/bob.nightlies/env/lib/python2.7/site-packages/bob/bio/spear/config/database/mobio_female.py", line 7, in <module>
database = bob.bio.db.MobioBioDatabase(
NameError: name 'bob' is not defined
-------------------- >> begin captured logging << --------------------
bob.bio.base: WARNING: Under the desired name 'atnt', there are multiple entry points defined, we return the first one: ['bob.bio.db.default_configs.atnt', 'bob.bio.face.config.database.atnt']
bob.bio.base: WARNING: Under the desired name 'atnt', there are multiple entry points defined, we return the first one: ['bob.bio.db.default_configs.atnt', 'bob.bio.face.config.database.atnt']
--------------------- >> end captured logging << ---------------------
```Refactoring 2016 and gitlab migration milestoneAmir MOHAMMADIAmir MOHAMMADIhttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/13This package contains 2 license files, it should be GPLv3 only!2017-10-25T00:08:37ZAndré AnjosThis package contains 2 license files, it should be GPLv3 only!Please fix this ASAP.Please fix this ASAP.Amir MOHAMMADIAmir MOHAMMADIhttps://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/12Failure in running baseline experiments2017-10-25T00:08:37ZAndré AnjosFailure in running baseline experiments*Created by: suzinia*
Hello,
I am running the baseline experiments with voxforge in the link;
https://pythonhosted.org/bob.bio.spear/baselines.html
I was able to run the first baseline experiment which was
$ bin/verify.py -d vo...*Created by: suzinia*
Hello,
I am running the baseline experiments with voxforge in the link;
https://pythonhosted.org/bob.bio.spear/baselines.html
I was able to run the first baseline experiment which was
$ bin/verify.py -d voxforge -p energy-2gauss -e mfcc-60 -a gmm-voxforge -s ubm_gmm --groups {dev,eval}
However, the others failed with the following error message.
$ bin/verify.py -d voxforge -p energy-2gauss -e mfcc-60 -a ivec-plda-voxforge -s ivec-plda --groups {dev,eval} -g grid
bob.bio.base@2016-06-23 21:09:38,763 -- ERROR: During the execution, an exception was raised: [Errno 2] No such file or directory
Traceback (most recent call last):
File "bin/verify.py", line 34, in <module>
sys.exit(bob.bio.base.script.verify.main())
File "/home/soo/work/eggs/bob.bio.base-2.0.9-py2.7.egg/bob/bio/base/script/verify.py", line 446, in main
verify(args, command_line_parameters)
File "/home/soo/work/eggs/bob.bio.base-2.0.9-py2.7.egg/bob/bio/base/script/verify.py", line 399, in verify
retval = add_jobs(args, submitter)
File "/home/soo/work/eggs/bob.bio.base-2.0.9-py2.7.egg/bob/bio/base/script/verify.py", line 57, in add_jobs
**args.grid.preprocessing_queue)
File "/home/soo/work/eggs/bob.bio.base-2.0.9-py2.7.egg/bob/bio/base/tools/grid.py", line 111, in submit
**kwargs
File "/home/soo/work/eggs/gridtk-1.3.0-py2.7.egg/gridtk/sge.py", line 98, in submit
job_id = self._submit_to_grid(job, name, array, dependencies, log_dir, verbosity, **kwargs)
File "/home/soo/work/eggs/gridtk-1.3.0-py2.7.egg/gridtk/sge.py", line 64, in _submit_to_grid
grid_id = qsub(command, context=self.context, name=name, deps=deps, array=q_array, stdout=log_dir, stderr=log_dir, **kwargs)
File "/home/soo/work/eggs/gridtk-1.3.0-py2.7.egg/gridtk/tools.py", line 255, in qsub
jobid = str_(sexec(context, scmd))
File "/home/soo/work/eggs/gridtk-1.3.0-py2.7.egg/gridtk/setshell.py", line 104, in sexec
stderr=subprocess.STDOUT, env=E)
File "/usr/lib/python2.7/subprocess.py", line 710, in __init__
errread, errwrite)
File "/usr/lib/python2.7/subprocess.py", line 1327, in _execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
Thank you!https://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/11buildout failure on OS X El Capitan2017-10-25T00:08:37ZAndré Anjosbuildout failure on OS X El Capitan*Created by: zhaoyue-zephyrus*
Hi all,
I am trying to install bob.bio.spear on OS X El Capitan but meet some problems.
I am used to Anaconda so I created a conda environment following [https://github.com/idiap/bob/wiki/Installati...*Created by: zhaoyue-zephyrus*
Hi all,
I am trying to install bob.bio.spear on OS X El Capitan but meet some problems.
I am used to Anaconda so I created a conda environment following [https://github.com/idiap/bob/wiki/Installation-with-conda](url). Then in the newly created environment, I cloned this repo and run "python bootstrap-buildout.py" and "./bin/buildout". The log looks like
...
Develop: '/Users/zhaoyue/workspace/bob.bio.spear/src/bob.core'
bob.buildout.tools: taking requirement `setuptools' (23.0.0) from `/Users/zhaoyue/workspace/bob.bio.spear/eggs/setuptools-23.0.0-py2.7.egg'
bob.buildout.tools: taking requirement `bob.extension' (2.2.1b0) from `/Users/zhaoyue/workspace/bob.bio.spear/src/bob.extension'
bob.buildout.tools: taking requirement `bob.blitz' (2.0.9b0) from `/Users/zhaoyue/workspace/bob.bio.spear/src/bob.blitz'
Traceback (most recent call last):
File "/var/folders/rr/wl535zcx1bnbl0vs3b8h14l00000gp/T/tmppanFll", line 14, in <module>
exec(compile(open('/Users/zhaoyue/workspace/bob.bio.spear/src/bob.core/setup.py').read(), '/Users/zhaoyue/workspace/bob.bio.spear/src/bob.core/setup.py', 'exec'))
File "/Users/zhaoyue/workspace/bob.bio.spear/src/bob.core/setup.py", line 8, in <module>
from bob.blitz.extension import Extension, Library, build_ext
File "/Users/zhaoyue/workspace/bob.bio.spear/src/bob.blitz/bob/blitz/__init__.py", line 6, in <module>
from ._library import array, as_blitz
ImportError: dlopen(/Users/zhaoyue/workspace/bob.bio.spear/src/bob.blitz/bob/blitz/_library.so, 2): Library not loaded: @rpath/libblitz.0.dylib
Referenced from: /Users/zhaoyue/workspace/bob.bio.spear/src/bob.blitz/bob/blitz/_library.so
Reason: image not found
While:
Installing.
Processing develop directory '/Users/zhaoyue/workspace/bob.bio.spear/src/bob.core'.
An internal error occurred due to a bug in either zc.buildout or in a
recipe being used:
Traceback (most recent call last):
File "/Users/zhaoyue/workspace/bob.bio.spear/eggs/zc.buildout-2.5.2-py2.7.egg/zc/buildout/buildout.py", line 1995, in main
getattr(buildout, command)(args)
File "/Users/zhaoyue/workspace/bob.bio.spear/eggs/zc.buildout-2.5.2-py2.7.egg/zc/buildout/buildout.py", line 528, in install
installed_develop_eggs = self._develop()
File "/Users/zhaoyue/workspace/bob.bio.spear/eggs/zc.buildout-2.5.2-py2.7.egg/zc/buildout/buildout.py", line 770, in _develop
zc.buildout.easy_install.develop(setup, dest)
File "/Users/zhaoyue/workspace/bob.bio.spear/eggs/bob.buildout-2.0.11-py2.7.egg/bob/buildout/extension.py", line 213, in develop
zc.buildout.easy_install.call_subprocess(args)
File "/Users/zhaoyue/workspace/bob.bio.spear/eggs/zc.buildout-2.5.2-py2.7.egg/zc/buildout/easy_install.py", line 160, in call_subprocess
% repr(args)[1:-1])
Exception: Failed to run command:
'/Users/zhaoyue/anaconda/envs/bob_env_py27/bin/python', '/var/folders/rr/wl535zcx1bnbl0vs3b8h14l00000gp/T/tmppanFll', '-v', 'develop', '-mxN', '-d', '/Users/zhaoyue/workspace/bob.bio.spear/develop-eggs/tmphtwg0Lbuild'
Seems like some libraries are missing? Can anyone offer some advice? Thanks in advance!https://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/8Mobio database is missing zt-norm2017-10-25T00:08:37ZAndré AnjosMobio database is missing zt-norm*Created by: 183amir*
I tried running some experiments with `mobio-audio-male` with the `--zt-norm` option in `verify_gmm.py` but I realized the database does not support ZT normalization. Is there a reason for that?*Created by: 183amir*
I tried running some experiments with `mobio-audio-male` with the `--zt-norm` option in `verify_gmm.py` but I realized the database does not support ZT normalization. Is there a reason for that?