py-diameter-synthesis, py-morph-tool, py-neurots, py-region-grower: Update synthesis suite

[adrien-berchet]

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Update synthesis suite

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[github-actions]

There are one or more issues with the title of this PR.
There are one or more issues with the commit message of commit dcbf381.
Commit message:

Update synthesis suite

Please satisfy at least one of the checks (one package, docs, or deploy).
The PR title must be compliant. The commit message of your commit must be compliant as well.
Issues:

• The following packages were changed but not mentioned:
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  Please mention at least one package.

[github-actions]

There are one or more issues with the commit message of commit dcbf381.
Commit message:

Update synthesis suite

Please satisfy at least one of the checks (one package, docs, or deploy).
The PR title must be compliant. The commit message of your commit must be compliant as well.
Issues:

• The following packages were changed but not mentioned:
  py-diameter-synthesis, py-morph-tool, py-neurots, py-region-grower:
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  Alternatively, you can use one line per package to describe the change per package.
  Please mention at least one package.

[github-actions]

There are one or more issues with the commit message of commit dcbf381.
Commit message:

Update synthesis suite

Please satisfy at least one of the checks (one package, docs, or deploy).
The PR title must be compliant. The commit message of your commit must be compliant as well.
Issues:

• The following packages were changed but not mentioned:
  py-diameter-synthesis, py-morph-tool, py-neurots, py-region-grower:
  You can simply use the above list, then explain what you changed.
  Alternatively, you can use one line per package to describe the change per package.
  Please mention at least one package.

[bbpbuildbot]

To test your PR, use the following on BlueBrain5:

unset MODULEPATH
. /gpfs/bbp.cscs.ch/ssd/apps/bsd/pulls/2102/config/modules.sh
module load unstable

Please test the following updated modules:

• brainbuilder/0.18.5
• connectome-tools/0.6.2
• placement-algorithm/2.3.1
• psp-validation/0.5.0
• py-archngv/3.0.2
• py-bbp-analysis-framework/1.6.42
• py-bbp-workflow/3.1.32.dev2
• py-bglibpy/4.10.1
• py-bluepy/2.5.1
• py-bluepyemodel/0.0.11
• py-bluepysnap/1.0.7
• py-brayns-circuit-studio-backend/1.0.1
• py-connectome-manipulator/0.0.4
• py-connectome-manipulator/0.0.6
• py-minis-validation/0.0.5
• py-morph-tool/2.9.1
• py-neuror/1.6.4
• py-region-grower/0.3.1

[adrien-berchet]

@eleftherioszisis can you test your workflow with this or the PR must be merged before?

[bbpbuildbot]

To test your PR, use the following on BlueBrain5:

unset MODULEPATH
. /gpfs/bbp.cscs.ch/ssd/apps/bsd/pulls/2102/config/modules.sh
module load unstable

Please test the following updated modules:

• brainbuilder/0.18.5
• connectome-tools/0.6.2
• placement-algorithm/2.3.1
• psp-validation/0.5.0
• py-archngv/3.0.2
• py-bbp-analysis-framework/1.6.42
• py-bbp-workflow/3.1.32.dev2
• py-bglibpy/4.10.1
• py-bluepy/2.5.1
• py-bluepyemodel/0.0.11
• py-bluepysnap/1.0.7
• py-brayns-circuit-studio-backend/1.0.1
• py-connectome-manipulator/0.0.4
• py-connectome-manipulator/0.0.6
• py-minis-validation/0.0.5
• py-morph-tool/2.9.1
• py-neuror/1.6.4
• py-region-grower/0.3.1

[bbpbuildbot]

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[bbpbuildbot]

To test your PR, use the following on BlueBrain5:

unset MODULEPATH
. /gpfs/bbp.cscs.ch/ssd/apps/bsd/pulls/2102/config/modules.sh
module load unstable

Please test the following updated modules:

• brainbuilder/0.18.5
• connectome-tools/0.6.2
• placement-algorithm/2.3.1
• psp-validation/0.5.0
• py-archngv/3.0.2
• py-bbp-analysis-framework/1.6.42
• py-bbp-workflow/3.1.32.dev2
• py-bglibpy/4.10.1
• py-bluepy/2.5.1
• py-bluepyemodel/0.0.11
• py-bluepysnap/1.0.7
• py-brayns-circuit-studio-backend/1.0.1
• py-connectome-manipulator/0.0.4
• py-connectome-manipulator/0.0.6
• py-minis-validation/0.0.5
• py-morph-tool/2.9.1
• py-neuror/1.6.4
• py-region-grower/0.3.1

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[bbpbuildbot]

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[bbpbuildbot]

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[bbpbuildbot]

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• applications / nse

[bbpbuildbot]

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[bbpbuildbot]

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Please fix the following packages that failed to build:

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[bbpbuildbot]

The following build jobs of the deployment for this PR failed:

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[bbpbuildbot]

To test your PR, use the following on BlueBrain5:

unset MODULEPATH
. /gpfs/bbp.cscs.ch/ssd/apps/bsd/pulls/2102/config/modules.sh
module load unstable

Please test the following updated modules:

• brainbuilder/0.18.5
• connectome-tools/0.6.2
• placement-algorithm/2.3.1
• psp-validation/0.5.0
• py-archngv/3.0.2
• py-bbp-analysis-framework/1.6.42
• py-bbp-workflow/3.1.32.dev3
• py-bglibpy/4.10.1
• py-bluepy/2.5.1
• py-bluepyemodel/0.0.11
• py-bluepysnap/1.0.7
• py-brayns-circuit-studio-backend/1.0.1
• py-connectome-manipulator/0.0.4
• py-connectome-manipulator/0.0.7
• py-minis-validation/0.0.5
• py-morph-tool/2.9.1
• py-neuror/1.6.4
• py-region-grower/0.4.3

[matz-e]

#2108 contains the update of Pandas.

Thanks! Is there anything I should do? Or you will merge #2108 and then we'll just have to rebase this one?

If we go with Pandas 2, I'll merge that one and then this one will have to be rebased.

[adrien-berchet]

Ok, I'll wait you to merge the other one and then rebase this one. Thanks!

[adrien-berchet]

Ah and I have another question: should I remove the versions that are not explicitly used by another package and that are already contained in a previous archive?

[matz-e]

Ah and I have another question: should I remove the versions that are not explicitly used by another package and that are already contained in a previous archive?

You can do that if it simplifies the package significantly.

[bbpbuildbot]

The following build jobs of the deployment for this PR failed:

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[eleftherioszisis]

@adrien-berchet , @arnaudon , is the pandas>=2.0 required, or could we relax it?

[adrien-berchet]

@adrien-berchet , @arnaudon , is the pandas>=2.0 required, or could we relax it?

I think we can relax it, I'm working on it.

[bbpbuildbot]

To test your PR, use the following on BlueBrain5:

unset MODULEPATH
. /gpfs/bbp.cscs.ch/ssd/apps/bsd/pulls/2102/config/modules.sh
module load unstable

Please test the following updated modules:

• brainbuilder/0.18.5
• connectome-tools/0.6.2
• placement-algorithm/2.3.1
• psp-validation/0.5.0
• py-amici/0.11.28
• py-archngv/3.0.2
• py-atlannot/0.1.3
• py-atlas-building-tools/0.1.10
• py-atldld/0.3.4
• py-atlinter/0.2.4
• py-bba-data-push/1.0.8
• py-bba-webexporter/0.1.5
• py-bbp-analysis-framework/1.6.42
• py-bbp-workflow/3.1.32.dev3
• py-bglibpy/4.10.1
• py-bluepy/2.5.1
• py-bluepyemodel/0.0.11
• py-bluepymm/0.7.65
• py-bluepyopt/1.13.86
• py-bluepyparallel/0.0.5
• py-bluepysnap/1.0.7
• py-brayns-circuit-studio-backend/1.0.1
• py-connectome-manipulator/0.0.4
• py-connectome-manipulator/0.0.7
• py-cwl-registry/0.3.14
• py-dask-mpi/2022.4.0
• py-minis-validation/0.0.5
• py-morph-tool/2.9.1
• py-neuror/1.6.4
• py-nexusforge/0.8.1
• py-region-grower/1.1.1
• py-visual-cortex-analysis/0.0.1.dev0
• python-dev/0.5
• spykfunc/0.18.1

[matz-e]

Thank you for relaxing the Pandas requirement! I think there's quite some work to be done for the next deployment to be able to use Pandas 2 consistently throughout our stack.

[adrien-berchet]

Thank you for relaxing the Pandas requirement! I think there's quite some work to be done for the next deployment to be able to use Pandas 2 consistently throughout our stack.

No problem, it was simpler for everybody :)
And thank you very much for your help on this!!!