bob issueshttps://gitlab.idiap.ch/groups/bob/-/issues2018-06-03T12:14:16Zhttps://gitlab.idiap.ch/bob/bob.bio.base/-/issues/37Some database tests are missing2018-06-03T12:14:16ZTiago de Freitas PereiraSome database tests are missingIt is necessary to move the `bob.bio.db` tests to `bob.bio.base`It is necessary to move the `bob.bio.db` tests to `bob.bio.base`Refactoring 2016 and gitlab migration milestoneTiago de Freitas PereiraTiago de Freitas Pereira2016-09-16https://gitlab.idiap.ch/bob/bob.learn.em/-/issues/23Variance flooring is not set properly in the constructor2019-05-06T12:38:08ZTiago de Freitas PereiraVariance flooring is not set properly in the constructorFor some reason the variance threshold is not set in the initialization of the GMMTrainers (ML and MAP).
Currently, the default is set to 0.0 and not to: either the minimum limit value (if nothing is set) or the one explicitly set in th...For some reason the variance threshold is not set in the initialization of the GMMTrainers (ML and MAP).
Currently, the default is set to 0.0 and not to: either the minimum limit value (if nothing is set) or the one explicitly set in the constructor.
The only case that this works is when you set this value explicitly via the method `set_variance_thresholds` (e.g http://pythonhosted.org/bob.learn.em/py_api.html#bob.learn.em.GMMMachine.set_variance_thresholds).Tiago de Freitas PereiraTiago de Freitas Pereira2017-01-03https://gitlab.idiap.ch/bob/bob.extension/-/issues/36Mirror interphinx doc2018-06-05T07:22:46ZTiago de Freitas PereiraMirror interphinx docAs you may know we are not able to build anything in the CI that has intersphinx with numpy/scipy because of a problem in https://docs.scipy.org
We should keep a mirror of some sphinx objects in case of a failure.
What do you think?As you may know we are not able to build anything in the CI that has intersphinx with numpy/scipy because of a problem in https://docs.scipy.org
We should keep a mirror of some sphinx objects in case of a failure.
What do you think?Tiago de Freitas PereiraTiago de Freitas Pereira2017-03-27https://gitlab.idiap.ch/bob/bob.bio.spear/-/issues/24Add more info on the latest handcrafted features with usage examples2020-10-08T07:15:14ZPavel KORSHUNOVAdd more info on the latest handcrafted features with usage examplesNew features include more customizable MFCC, SCFC, RFCC, SCMC, SSFC, and LFCC.New features include more customizable MFCC, SCFC, RFCC, SCMC, SSFC, and LFCC.May 2017 HackathonPavel KORSHUNOVPavel KORSHUNOV2017-05-09https://gitlab.idiap.ch/bob/bob.ip.qualitymeasure/-/issues/2PyPI classifiers stop deployment2017-07-19T13:51:47ZAndré AnjosPyPI classifiers stop deploymentThe license tag is wrong at `setup.py`. Please use the precise value as indicated here:
https://gitlab.idiap.ch/bob/bob.admin/tree/master/templates
Which should be:
```text
License :: OSI Approved :: GNU General Public License v3 (GPL...The license tag is wrong at `setup.py`. Please use the precise value as indicated here:
https://gitlab.idiap.ch/bob/bob.admin/tree/master/templates
Which should be:
```text
License :: OSI Approved :: GNU General Public License v3 (GPLv3)
```
And **not** as is currently:
```text
License :: OSI Approved :: GPL General Public Licence (GPLv3)
```
@dgeissbuhler, please fix this and re-release v1.0.1David GEISSBUHLERDavid GEISSBUHLER2017-07-19https://gitlab.idiap.ch/bob/bob.pad.face/-/issues/4Current stable builds are failing because of `nose` in `requirements.txt`2017-07-27T13:08:34ZAndré AnjosCurrent stable builds are failing because of `nose` in `requirements.txt`Please remove `nose` from `requirements.txt` and put it in `test-requirements.txt`. That should fix the problem.Please remove `nose` from `requirements.txt` and put it in `test-requirements.txt`. That should fix the problem.Olegs NIKISINSOlegs NIKISINS2017-08-06https://gitlab.idiap.ch/bob/bob.pad.face/-/issues/3Remove `./bin/` notation from all documentation2017-07-27T13:08:32ZAndré AnjosRemove `./bin/` notation from all documentationIt is clearer and more future-proof if we remove the `./bin/` from all command lines. When the conda package will be ready (soon now), the `./bin/` stuff will be deprecated.It is clearer and more future-proof if we remove the `./bin/` from all command lines. When the conda package will be ready (soon now), the `./bin/` stuff will be deprecated.Olegs NIKISINSOlegs NIKISINS2017-08-06https://gitlab.idiap.ch/bob/bob.pad.face/-/issues/2Add database "configurations" for each baseline database2017-07-27T13:08:29ZAndré AnjosAdd database "configurations" for each baseline databaseThis would make the command-line really sweet and short:
```sh
spoof.py replay-mobile lbp-svm –vv --parallel=16
```
The `replay-mobile` configuration in this case would include settings for `database`, `protocol` and `groups` so the us...This would make the command-line really sweet and short:
```sh
spoof.py replay-mobile lbp-svm –vv --parallel=16
```
The `replay-mobile` configuration in this case would include settings for `database`, `protocol` and `groups` so the user does not have to do it.Olegs NIKISINSOlegs NIKISINS2017-08-06https://gitlab.idiap.ch/bob/bob.kaldi/-/issues/6Results in the doc2017-10-13T12:29:25ZSébastien MARCELResults in the docCould you please augment the document with results and plots of experiments produced with bob.kaldi ?
eg. https://www.idiap.ch/software/bob/docs/bob/bob.bio.face/stable/baselines.html#baseline-results
cc @alexandre.nanchenCould you please augment the document with results and plots of experiments produced with bob.kaldi ?
eg. https://www.idiap.ch/software/bob/docs/bob/bob.bio.face/stable/baselines.html#baseline-results
cc @alexandre.nanchenMilos CERNAKMilos CERNAK2017-10-31https://gitlab.idiap.ch/bob/docs/-/issues/6Index of some packages (e.g. bob.ip.mtcnn) are not correct2019-05-28T14:03:40ZAmir MOHAMMADIIndex of some packages (e.g. bob.ip.mtcnn) are not correctI just noticed that in `doc/index.rst` some packages are linked to their `README.rst` instead of their `doc/index.rst` and hence the links in the sidebar are broken.I just noticed that in `doc/index.rst` some packages are linked to their `README.rst` instead of their `doc/index.rst` and hence the links in the sidebar are broken.Tiago de Freitas PereiraTiago de Freitas Pereira2018-08-24https://gitlab.idiap.ch/bob/bob.measure/-/issues/71No API / function to plot a histogram with scores in memory2024-02-15T13:53:03ZYannick DAYERNo API / function to plot a histogram with scores in memoryThere is no way of creating a score histogram (like `bob bio hist` from bob.bio.base) from code without saving the scores to a file.
`det`, `roc` and other plots commands have a function that allows feeding negative and positive scores ...There is no way of creating a score histogram (like `bob bio hist` from bob.bio.base) from code without saving the scores to a file.
`det`, `roc` and other plots commands have a function that allows feeding negative and positive scores as lists, but `hist` does all the plotting in the Figure class.
We should consider moving the plotting part of the `bob.measure.script.figure.Hist` class in an `hist` function in the `bob.measure.plot` module.https://gitlab.idiap.ch/bob/bob.bio.vein/-/issues/29CI: Database interfaces return empty sample list2023-11-03T09:59:05ZYannick DAYERCI: Database interfaces return empty sample list[Sometimes](https://gitlab.idiap.ch/bob/bob.bio.vein/-/jobs/364632) one of the CI jobs fails because a database returned an empty list when retrieving samples.
Has Mainly been seen on the `macos-arm` jobs, but always on one of both jobs...[Sometimes](https://gitlab.idiap.ch/bob/bob.bio.vein/-/jobs/364632) one of the CI jobs fails because a database returned an empty list when retrieving samples.
Has Mainly been seen on the `macos-arm` jobs, but always on one of both jobs (`3.9,macos-arm` or `3.10,macos-arm`).
Re-running the failed job fixes the issue.
It could be an issue with having two jobs running on the same machine. If both share the same `data` directory: if the first job finishes and cleans the database definition file, the second one has no file to read and returns an empty sample list.https://gitlab.idiap.ch/bob/bob.bio.base/-/issues/195download_file extracts the archive file every time it is called.2023-10-31T13:42:42ZYannick DAYERdownload_file extracts the archive file every time it is called.When the `extract` flag is set in [`download_file`](https://gitlab.idiap.ch/bob/bob.bio.base/-/blob/v8.0.0/src/bob/bio/base/database/utils.py?ref_type=tags#L474), the archive file is extracted at every call, even if the first call that d...When the `extract` flag is set in [`download_file`](https://gitlab.idiap.ch/bob/bob.bio.base/-/blob/v8.0.0/src/bob/bio/base/database/utils.py?ref_type=tags#L474), the archive file is extracted at every call, even if the first call that downloaded the archive already extracted it. The issue is that for some archives and on some systems, this extraction takes time (more than 10s).
Choices:
- Keep the extraction even if the archive was not re-downloaded:
- Takes time at the start of every run.
- Ensures the extracted files are correct and were not modified.
- Only extract the archive just after downloading it:
- If the extracted files are modified between runs, the next run will use those.Yannick DAYERYannick DAYERhttps://gitlab.idiap.ch/bob/bob.measure/-/issues/70Output of metrics is confusing when not using an eval set2023-10-17T10:34:57ZYannick DAYEROutput of metrics is confusing when not using an eval setWhen evaluating one file (or multiple files without the `-e`/`--eval` option), the `metrics` option assumes this is a development set (it prints `[Min. criterion: EER ] Threshold on Development set <...>`).
This can be confusing if we w...When evaluating one file (or multiple files without the `-e`/`--eval` option), the `metrics` option assumes this is a development set (it prints `[Min. criterion: EER ] Threshold on Development set <...>`).
This can be confusing if we want to score one file on its own which could not be a development set file (e.g. to get the EER metrics of only an eval set).
suggestions:
- Change the line [script/figure.py:330](https://gitlab.idiap.ch/bob/bob.measure/-/blob/v6.1.0/src/bob/measure/script/figure.py?ref_type=tags#L330) and [342](https://gitlab.idiap.ch/bob/bob.measure/-/blob/v6.1.0/src/bob/measure/script/figure.py?ref_type=tags#L342) to something like `Threshold on file '%s': %s`, and keep the notion of `Development set` only when `self._eval == True`.
- Allow changing the set name with a new option.https://gitlab.idiap.ch/bob/bob.bio.base/-/issues/194Loading scores for the measure commands fails on non-float scores2023-08-22T08:07:17ZYannick DAYERLoading scores for the measure commands fails on non-float scores[src/bob/bio/base/score/load.py#L663](https://gitlab.idiap.ch/bob/bob.bio.base/-/blob/master/src/bob/bio/base/score/load.py#L663) and [src/bob/bio/base/score/load.py#L650](https://gitlab.idiap.ch/bob/bob.bio.base/-/blob/master/src/bob/bi...[src/bob/bio/base/score/load.py#L663](https://gitlab.idiap.ch/bob/bob.bio.base/-/blob/master/src/bob/bio/base/score/load.py#L663) and [src/bob/bio/base/score/load.py#L650](https://gitlab.idiap.ch/bob/bob.bio.base/-/blob/master/src/bob/bio/base/score/load.py#L650) cast a CSV score column to float, but it could contain other things (nothing or `None`) that cannot be converted to float. This needs to be handled correctly.
Possible solution:
- Convert all non-float values to `float("nan")`, this should be handled correctly by the measure commands.https://gitlab.idiap.ch/bob/bob.pad.base/-/issues/45train set is mandatory2023-06-27T17:42:16ZYannick DAYERtrain set is mandatoryThe training is always applied in `run-pipeline`, even on non-trainable pipelines. This is fine until you consider datasets without train sets. Trying to load such a dataset results in an error.
Possible solutions:
- Detect if the data...The training is always applied in `run-pipeline`, even on non-trainable pipelines. This is fine until you consider datasets without train sets. Trying to load such a dataset results in an error.
Possible solutions:
- Detect if the database has no train set, and warn the user that no fit will be done on the pipeline;
- Add an option to skip the training (and the train set loading attempt).Yannick DAYERYannick DAYERhttps://gitlab.idiap.ch/bob/bob.bio.base/-/issues/193Add a `--score-column` option in metrics and figures2023-08-22T07:59:18ZYannick DAYERAdd a `--score-column` option in metrics and figuresIn order to process score files with multiple score columns, we should have a way to select a specific column that contains the scores.
``` sh
bob bio metrics /path/to/the/file --score-column "fusion_score"
```
(Until now, we needed to...In order to process score files with multiple score columns, we should have a way to select a specific column that contains the scores.
``` sh
bob bio metrics /path/to/the/file --score-column "fusion_score"
```
(Until now, we needed to change both columns' headers to do that).Yannick DAYERYannick DAYERhttps://gitlab.idiap.ch/bob/nightlies/-/issues/64Pipeline passes even when some sub-pipeline fails2023-05-11T09:47:04ZYannick DAYERPipeline passes even when some sub-pipeline failsWhen the bob.bio.face pipeline fails (e.g. [on May the 4th](https://gitlab.idiap.ch/bob/bob.bio.face/-/pipelines/73071)), the [nightlies pipeline](https://gitlab.idiap.ch/bob/nightlies/-/pipelines/73059) does not care that it failed (it ...When the bob.bio.face pipeline fails (e.g. [on May the 4th](https://gitlab.idiap.ch/bob/bob.bio.face/-/pipelines/73071)), the [nightlies pipeline](https://gitlab.idiap.ch/bob/nightlies/-/pipelines/73059) does not care that it failed (it even marks it as succeeded), and continues executing.
I'm expecting the nightlies' pipeline to stop (or at least show that one job failed).
This is not critical as we receive a notification anyway, at the level of the package (here bob.bio.face).https://gitlab.idiap.ch/bob/bob.bio.base/-/issues/192vuln hist command missing far_value option2023-05-01T15:11:06ZAlain KOMATYvuln hist command missing far_value optionExecuting the command:
```
bob vuln hist -c far --far-value 0.001 scores-dev.csv --output 11_hist.pdf --figsize "6,5"
```
Outputs the following error:
```
Error: No such option: --far-value Did you mean --iapmr-line?
```Executing the command:
```
bob vuln hist -c far --far-value 0.001 scores-dev.csv --output 11_hist.pdf --figsize "6,5"
```
Outputs the following error:
```
Error: No such option: --far-value Did you mean --iapmr-line?
```https://gitlab.idiap.ch/bob/docs/-/issues/13Bob citation2023-04-13T06:59:19ZHatef OTROSHIBob citationIn [Bob's webpage](https://www.idiap.ch/software/bob/), the current BibTeX is referring to the proceedings of ICML 2017, while the paper has not appeared in the proceedings of ICML 2017. Indeed, the paper is accepted in [ICML 2017 RML W...In [Bob's webpage](https://www.idiap.ch/software/bob/), the current BibTeX is referring to the proceedings of ICML 2017, while the paper has not appeared in the proceedings of ICML 2017. Indeed, the paper is accepted in [ICML 2017 RML Workshop, Reproducibility in Machine Learning](https://openreview.net/group?id=ICML.cc/2017/RML) and is available on the [Openreview platform](https://openreview.net/forum?id=BJDDItGX-¬eId=BJDDItGX-) only. Therefore, its citation needs to be fixed as follows:
```BibTeX
@inproceedings{bob2017,
author = {A. Anjos AND M. G\"unther AND T. de Freitas Pereira AND
P. Korshunov AND A. Mohammadi AND S. Marcel},
title = {Continuously Reproducing Toolchains in Pattern Recognition and
Machine Learning Experiments},
year = {2017},
month = aug,
booktitle = {ICML 2017 Reproducibility in Machine Learning Workshop},
pages={1-8},
url={https://openreview.net/forum?id=BJDDItGX-}
}
```
ping @pkorshunov @ydayer