Started
Running as brainvisa
----------------------------------------
$ /usr/bin/python3 /volatile/a-sac-ns-brainvisa/bbi_nightly/cea-master-5.3/src/development/casa-distro/master/bin/casa_distro bv_maker name=cea-master-5.3 -- sources
----------------------------------------
Updating git repository /casa/host/src/aims/aims-free/master
$ 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
Already up to date.
Updating git repository /casa/host/src/aims/aims-gpl/master
$ 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
Already up to date.
Updating git repository /casa/host/src/anatomist/anatomist-free/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/anatomist-free
eb1eed71..40987e03 master -> origin/master
9cebab62..45dce5e0 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating eb1eed71..40987e03
Fast-forward
soma-env/soma-env-recipe.yaml | 2 --
1 file changed, 2 deletions(-)
Updating git repository /casa/host/src/anatomist/anatomist-gpl/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/anatomist-gpl
f719dd1..d3663a1 master -> origin/master
f719dd1..d3663a1 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating f719dd1..d3663a1
Fast-forward
.gitignore | 1 +
1 file changed, 1 insertion(+)
create mode 100644 .gitignore
Updating git repository /casa/host/src/axon/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/axon
a3d2bd38..d46d8795 capsul3 -> origin/capsul3
b5dd9aa4..d2865cc4 master -> origin/master
b5dd9aa4..c095f412 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating b5dd9aa4..d2865cc4
Fast-forward
soma-env/soma-env-recipe.yaml | 15 +++++++++++++++
1 file changed, 15 insertions(+)
create mode 100644 soma-env/soma-env-recipe.yaml
Updating git repository /casa/host/src/brainrat/bioprocessing/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
Using BioProj credentials stored in svn.secret (username 'brainvisa-admin')
From https://bioproj.extra.cea.fr/git/bioprocessing
6e03999..47145d2 master -> origin/master
cd93edb..5e792cc soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 6e03999..47145d2
Fast-forward
.../digitalatlas/DigitalAtlasHierarchyGenerate.py | 2 +-
.../DigitalAtlasHierarchyGenerateFromJson.py | 80 ++++++++++++++++++++++
soma-env/soma-env-recipe.yaml | 1 +
3 files changed, 82 insertions(+), 1 deletion(-)
create mode 100644 brainvisa/toolboxes/bioprocessing/processes/research/digitalatlas/DigitalAtlasHierarchyGenerateFromJson.py
Updating git repository /casa/host/src/brainrat/brainrat-gpl/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
Using BioProj credentials stored in svn.secret (username 'brainvisa-admin')
$ 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
Already up to date.
Updating git repository /casa/host/src/brainrat/brainrat-private/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
Using BioProj credentials stored in svn.secret (username 'brainvisa-admin')
From https://bioproj.extra.cea.fr/git/brainrat-private
e9670b4..20f9016 master -> origin/master
dfe33cb..bdc7ecc soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating e9670b4..20f9016
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
Updating git repository /casa/host/src/brainrat/primatologist-gpl/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
Using BioProj credentials stored in svn.secret (username 'brainvisa-admin')
From https://bioproj.extra.cea.fr/git/primatologist-gpl
8e590b0..337168a soma-env-6.0 -> origin/soma-env-6.0
$ 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
Already up to date.
Updating git repository /casa/host/src/brainvisa-share/master
$ 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
Already up to date.
Updating git repository /casa/host/src/brainvisa-spm/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/brainvisa-spm
273f2ca..e77cda3 master -> origin/master
6645742..aea93ed soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 273f2ca..e77cda3
Fast-forward
soma-env/soma-env-recipe.yaml | 2 ++
1 file changed, 2 insertions(+)
Updating git repository /casa/host/src/capsul/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/populse/capsul
202acf08..9ee73bad gh-pages -> origin/gh-pages
3e888b11..168f4a3c master -> origin/master
21157d9d..74e1ec4d soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 3e888b11..168f4a3c
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/constellation/constellation-gpl/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/constellation-gpl
ea5df9f..5bb66e6 master -> origin/master
19a0e51..d2925bb soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating ea5df9f..5bb66e6
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
Updating git repository /casa/host/src/constellation/constellation-nonfree/master
$ 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
Already up to date.
Updating git repository /casa/host/src/cortical_surface/brainvisa_freesurfer/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/brainvisa_freesurfer
a40875d..80716f7 master -> origin/master
7b11ac3..ede7efd soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating a40875d..80716f7
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
Updating git repository /casa/host/src/cortical_surface/cortical_surface-gpl/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/cortical_surface-gpl
04f5e7e..0ac8a75 master -> origin/master
1894cf3..7623124 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 04f5e7e..0ac8a75
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
Updating git repository /casa/host/src/cortical_surface/cortical_surface-nonfree/master
$ 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
Already up to date.
Updating git repository /casa/host/src/development/brainvisa-cmake/master
$ 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
Already up to date.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/development/casa-distro/master
$ 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
Already up to date.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/development/neuro-forge/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/neurospin/neuro-forge
016fe62..8e7e630 main -> origin/main
$ git update-ref --no-deref refs/bv_head refs/remotes/origin/main
$ git -c remote.origin.skipDefaultUpdate remote update
$ git merge --ff-only refs/bv_head
Updating 016fe62..8e7e630
Fast-forward
recipes/gltf-transform/recipe.yaml | 28 ++++++++++++++++++++++++++++
1 file changed, 28 insertions(+)
create mode 100644 recipes/gltf-transform/recipe.yaml
Updating git repository /casa/host/src/disco/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
Using BioProj credentials stored in svn.secret (username 'brainvisa-admin')
From https://bioproj.extra.cea.fr/git/brainvisa-disco
186f84c..e28a829 master -> origin/master
9f37b38..fe4df47 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 186f84c..e28a829
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/highres-cortex/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/neurospin/highres-cortex
a2d6a7d..4bb7822 master -> origin/master
ce77394..a6f7bef soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating a2d6a7d..4bb7822
Fast-forward
soma-env/soma-env-recipe.yaml | 1 +
1 file changed, 1 insertion(+)
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/morphologist/morpho-deepsulci/master
$ 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
Already up to date.
Updating git repository /casa/host/src/morphologist/morphologist-gpl/master
$ 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
Already up to date.
Updating git repository /casa/host/src/morphologist/morphologist-nonfree/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/morphologist-nonfree
6c1a547..99c9085 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Already up to date.
Updating git repository /casa/host/src/morphologist/morphologist-ui/master
$ 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
Already up to date.
Updating git repository /casa/host/src/morphologist/sulci-nonfree/master
$ 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
Already up to date.
Updating git repository /casa/host/src/populse/populse_db/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/populse/populse_db
a5b230b..9efe650 soma-env-6.0 -> origin/soma-env-6.0
5dee718..38152e3 storage_server -> origin/storage_server
$ 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
Already up to date.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/soma/soma-base/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/populse/soma-base
07c6662..bc5d03d soma-env-6.0 -> origin/soma-env-6.0
$ 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
Already up to date.
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Updating git repository /casa/host/src/soma/soma-io/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/brainvisa/soma-io
9a978e0..edd62eb master -> origin/master
879a81e..e341d27 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 9a978e0..edd62eb
Fast-forward
soma-env/soma-env-recipe.yaml | 3 ++-
1 file changed, 2 insertions(+), 1 deletion(-)
Updating git repository /casa/host/src/soma/soma-workflow/master
$ git fetch --tags --prune origin '+refs/heads/*:refs/remotes/origin/*'
From https://github.com/populse/soma-workflow
2c48804..ac05fa4 gh-pages -> origin/gh-pages
030d946..9e731d2 master -> origin/master
030d946..4488fb1 soma-env-6.0 -> origin/soma-env-6.0
$ 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
Updating 030d946..9e731d2
Fast-forward
soma-env/soma-env-recipe.yaml | 12 ++++++++++++
1 file changed, 12 insertions(+)
create mode 100644 soma-env/soma-env-recipe.yaml
$ pre-commit install
pre-commit installed at .git/hooks/pre-commit
Summary of Git repositories in /casa/host/src
=============================================
┌───── * uncommitted working tree changes
│┌──── + uncommitted index changes
││┌─── $ stash present
│││┌── % untracked files
││││ ┌ HEAD
││││ │ ┌ update status
││││ │ │ ┌ bv_maker upstream state
││││ │ │ │ ┌ Git upstream state
││││ │ │ │ │┌ Directory
master (ead93684) ✓ U= aims/aims-free/master
master (87e39e9) ✓ U= aims/aims-gpl/master
master (40987e03) ✓ U= anatomist/anatomist-free/master
master (d3663a1) ✓ U= anatomist/anatomist-gpl/master
master (d2865cc4) ✓ U= axon/master
master (47145d2) ✓ U= brainrat/bioprocessing/master
master (863e579) ✓ U= brainrat/brainrat-gpl/master
master (20f9016) ✓ U= brainrat/brainrat-private/master
master (f30acde) ✓ U= brainrat/primatologist-gpl/master
master (869819a) ✓ U= brainvisa-share/master
master (e77cda3) ✓ U= brainvisa-spm/master
master (168f4a3c) ✓ U= capsul/master
master (5bb66e6) ✓ U= constellation/constellation-gpl/master
master (ccb3558) ✓ U= constellation/constellation-nonfree/master
master (80716f7) ✓ U= cortical_surface/brainvisa_freesurfer/master
master (0ac8a75) ✓ U= cortical_surface/cortical_surface-gpl/master
master (c20dd90) ✓ U= cortical_surface/cortical_surface-nonfree/master
master (c924c10) ✓ U= development/brainvisa-cmake/master
master (d0e4e2e) ✓ U= development/casa-distro/master
main (8e7e630) ✓ U= development/neuro-forge/master
master (e28a829) ✓ U= disco/master
master (4bb7822) ✓ U= highres-cortex/master
master (e72510d) ✓ U= morphologist/morpho-deepsulci/master
master (4333dbf9) ✓ U= morphologist/morphologist-gpl/master
master (c8cf86b) ✓ U= morphologist/morphologist-nonfree/master
master (c22bab8) ✓ U= morphologist/morphologist-ui/master
master (cb2e0eb) ✓ U= morphologist/sulci-nonfree/master
master (e2cee05) ✓ U= populse/populse_db/master
master (f6a92dc) ✓ U= soma/soma-base/master
master (edd62eb) ✓ U= soma/soma-io/master
master (9e731d2) ✓ U= soma/soma-workflow/master
bv_maker summary:
OK step sources: /casa/host/src, started: 2025/10/06 04:59, stopped: 2025/10/06 04:59
All went good.
Finished: SUCCESS