Started
Running as brainvisa
----------------------------------------
$ /usr/bin/python3 /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainvisa-cmake/bin/bv_run_pixi_env.py bv_maker name=soma-env-0.1 -- sources
----------------------------------------
WARN Encountered 1 warning while parsing the manifest:
⚠ The `project` field is deprecated. Use `workspace` instead.
╭─[/home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/pixi.toml:1:1]
1 │ ╭─▶ [project]
2 │ │ name = "soma-env-0.1"
3 │ │ channels = ["pytorch", "nvidia", "conda-forge", "https://brainvisa.info/neuro-forge"]
4 │ │ platforms = ["linux-64"]
5 │ ├─▶ version = "0.1"
· ╰──── replace this with 'workspace'
6 │
╰────
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/aims-free
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/aims-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/anatomist-free
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/anatomist-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/capsul3
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/axon
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/capsul3
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/bioprocessing
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainrat-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainrat-private
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainvisa-cmake
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainvisa-cmake
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainvisa-share
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainvisa-spm
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/brainvisa_freesurfer
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/capsul
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/3.0
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/constellation-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/constellation-nonfree
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/cortical_surface-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/cortical_surface-nonfree
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/disco
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/highres-cortex
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/morpho-deepsulci
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/capsul3
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/morphologist-baby
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/morphologist-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/capsul3
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/morphologist-nonfree
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/morphologist-ui
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/capsul3
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/nuclear_imaging-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/nuclear_imaging-nonfree
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/populse-db
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git pull --ff-only
Déjà à jour.
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/primatologist-gpl
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/soma-base
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/6.0
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/soma-io
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Updating git repository /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src/sulci-nonfree
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/master
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Déjà à jour.
Summary of Git repositories in /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src
========================================================================================
┌───── * uncommitted working tree changes
│┌──── + uncommitted index changes
││┌─── $ stash present
│││┌── % untracked files
││││ ┌ HEAD
││││ │ ┌ update status
││││ │ │ ┌ bv_maker upstream state
││││ │ │ │ ┌ Git upstream state
││││ │ │ │ │ ┌ Directory
master (48dcfde9) ✓ U= aims-free
master (bd28573) ✓ U= aims-gpl
master (63c01ac1) ✓ U= anatomist-free
capsul3 (c3ecb69) ✓ U= anatomist-gpl
capsul3 (05237cd8) ✓ U= axon
master (88928c8) ✓ U= bioprocessing
master (cd02b40) ✓ U= brainrat-gpl
master (f552333) ✓ U= brainrat-private
master (8a4e923) ✓ U= brainvisa-cmake
master (8a4e923) ✓ U= brainvisa-cmake
master (6197763) ✓ U= brainvisa-share
master (d2087b5) ✓ U= brainvisa-spm
master (1574c5b) ✓ U= brainvisa_freesurfer
3.0 (02318b38) ✓ U= capsul
master (110934b) ✓ U= constellation-gpl
master (77484c7) ✓ U= constellation-nonfree
master (50af02f) ✓ U= cortical_surface-gpl
master (f607afc) ✓ U= cortical_surface-nonfree
master (3d2a8d0) ✓ U= disco
master (1bb4c84) ✓ U= highres-cortex
capsul3 (b79781f) ✓ U= morpho-deepsulci
master (5dcfbd3) ✓ U= morphologist-baby
capsul3 (f3800593) ✓ U= morphologist-gpl
master (12c73e8) ✓ U= morphologist-nonfree
capsul3 (b101f44) ✓ U= morphologist-ui
% master (b4a92468) ✓ U= nuclear_imaging-gpl
master (58e343b) ✓ U= nuclear_imaging-nonfree
3.0 (349e58b) ✓ U= u+62 populse-db
master (fe19b9a) ✓ U= primatologist-gpl
6.0 (a4561c2) ✓ U= soma-base
master (82984b4) ✓ U= soma-io
master (3a75327) ✓ U= sulci-nonfree
bv_maker summary:
OK step sources: /home_local/a-sac-ns-brainvisa/bbi-daily/soma-env-0.1/src, started: 2026/06/29 04:47, stopped: 2026/06/29 04:47
All went good.
Finished: SUCCESS