Skipping 10 KB..
Full LogTestTestTestTestTestTestTestTestTestTestTestTestTest
+ tar -zxf -
+ popd
~/workspace/OMERO-guides-push
+ python3.11 -m venv build/venv
> git submodule update --init --recursive scripts # timeout=10
> git submodule update --init --recursive mde # timeout=10
+ . build/venv/bin/activate
++ deactivate nondestructive
++ '[' -n '' ']'
++ '[' -n '' ']'
++ hash -r
++ '[' -n '' ']'
++ unset VIRTUAL_ENV
++ unset VIRTUAL_ENV_PROMPT
++ '[' '!' nondestructive = nondestructive ']'
++ VIRTUAL_ENV=/home/omero/workspace/OMERO-guides-push/build/venv
++ export VIRTUAL_ENV
++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
++ PATH=/home/omero/workspace/OMERO-guides-push/build/venv/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
++ export PATH
++ '[' -n '' ']'
++ '[' -z '' ']'
++ _OLD_VIRTUAL_PS1=
++ PS1='(venv) '
++ export PS1
++ VIRTUAL_ENV_PROMPT='(venv) '
++ export VIRTUAL_ENV_PROMPT
++ hash -r
+ python3.11 -m pip install -U pip
Requirement already satisfied: pip in ./build/venv/lib64/python3.11/site-packages (22.3.1)
Collecting pip
Using cached pip-26.1-py3-none-any.whl (1.8 MB)
Installing collected packages: pip
Attempting uninstall: pip
Found existing installation: pip 22.3.1
Uninstalling pip-22.3.1:
Successfully uninstalled pip-22.3.1
Successfully installed pip-26.1
+ python3.11 -m pip install scc
Collecting scc
Using cached scc-0.20.0-py3-none-any.whl.metadata (3.6 kB)
Collecting PyGithub>=1.54 (from scc)
Using cached pygithub-2.9.1-py3-none-any.whl.metadata (3.9 kB)
Collecting PyYAML>=5.1 (from scc)
Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.4 kB)
Collecting future (from scc)
Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
Collecting ruamel.yaml (from scc)
Using cached ruamel_yaml-0.19.1-py3-none-any.whl.metadata (16 kB)
Collecting ruamel.yaml.jinja2 (from scc)
Using cached ruamel.yaml.jinja2-0.2.7-py2.py3-none-any.whl.metadata (2.9 kB)
Collecting six (from scc)
Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Collecting urllib3<2 (from scc)
Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
Collecting yaclifw<0.3,>=0.2.0 (from scc)
Using cached yaclifw-0.2.0-py3-none-any.whl
Collecting pynacl>=1.4.0 (from PyGithub>=1.54->scc)
Using cached pynacl-1.6.2-cp38-abi3-manylinux_2_34_x86_64.whl.metadata (10.0 kB)
Collecting requests>=2.14.0 (from PyGithub>=1.54->scc)
Using cached requests-2.33.1-py3-none-any.whl.metadata (4.8 kB)
Collecting pyjwt>=2.4.0 (from pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc)
Using cached pyjwt-2.12.1-py3-none-any.whl.metadata (4.1 kB)
Collecting typing-extensions>=4.5.0 (from PyGithub>=1.54->scc)
Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
Collecting cryptography>=3.4.0 (from pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc)
Using cached cryptography-47.0.0-cp311-abi3-manylinux_2_34_x86_64.whl.metadata (4.5 kB)
Collecting cffi>=2.0.0 (from cryptography>=3.4.0->pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc)
Using cached cffi-2.0.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (2.6 kB)
Collecting pycparser (from cffi>=2.0.0->cryptography>=3.4.0->pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc)
Using cached pycparser-3.0-py3-none-any.whl.metadata (8.2 kB)
Collecting charset_normalizer<4,>=2 (from requests>=2.14.0->PyGithub>=1.54->scc)
Using cached charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (40 kB)
Collecting idna<4,>=2.5 (from requests>=2.14.0->PyGithub>=1.54->scc)
Using cached idna-3.13-py3-none-any.whl.metadata (8.0 kB)
Collecting certifi>=2023.5.7 (from requests>=2.14.0->PyGithub>=1.54->scc)
Using cached certifi-2026.4.22-py3-none-any.whl.metadata (2.5 kB)
Using cached scc-0.20.0-py3-none-any.whl (48 kB)
Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
Using cached pygithub-2.9.1-py3-none-any.whl (449 kB)
Using cached pyjwt-2.12.1-py3-none-any.whl (29 kB)
Using cached cryptography-47.0.0-cp311-abi3-manylinux_2_34_x86_64.whl (4.7 MB)
Using cached cffi-2.0.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (215 kB)
Using cached pynacl-1.6.2-cp38-abi3-manylinux_2_34_x86_64.whl (1.4 MB)
Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
Using cached requests-2.33.1-py3-none-any.whl (64 kB)
Using cached charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (214 kB)
Using cached idna-3.13-py3-none-any.whl (68 kB)
Using cached certifi-2026.4.22-py3-none-any.whl (135 kB)
Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
Using cached future-1.0.0-py3-none-any.whl (491 kB)
Using cached pycparser-3.0-py3-none-any.whl (48 kB)
Using cached ruamel_yaml-0.19.1-py3-none-any.whl (118 kB)
Using cached ruamel.yaml.jinja2-0.2.7-py2.py3-none-any.whl (5.5 kB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Installing collected packages: urllib3, typing-extensions, six, ruamel.yaml, PyYAML, pyjwt, pycparser, idna, future, charset_normalizer, certifi, yaclifw, ruamel.yaml.jinja2, requests, cffi, pynacl, cryptography, PyGithub, scc
Successfully installed PyGithub-2.9.1 PyYAML-6.0.3 certifi-2026.4.22 cffi-2.0.0 charset_normalizer-3.4.7 cryptography-47.0.0 future-1.0.0 idna-3.13 pycparser-3.0 pyjwt-2.12.1 pynacl-1.6.2 requests-2.33.1 ruamel.yaml-0.19.1 ruamel.yaml.jinja2-0.2.7 scc-0.20.0 six-1.17.0 typing-extensions-4.15.0 urllib3-1.26.20 yaclifw-0.2.0
[Pipeline] sh
+ export BASE_REPO=omero-guides.git
+ BASE_REPO=omero-guides.git
+ export BASE_BRANCH=master
+ BASE_BRANCH=master
+ export VERSION_LOG=/home/omero/workspace/OMERO-guides-push/build/version.tsv
+ VERSION_LOG=/home/omero/workspace/OMERO-guides-push/build/version.tsv
+ . build/venv/bin/activate
++ deactivate nondestructive
++ '[' -n '' ']'
++ '[' -n '' ']'
++ hash -r
++ '[' -n '' ']'
++ unset VIRTUAL_ENV
++ unset VIRTUAL_ENV_PROMPT
++ '[' '!' nondestructive = nondestructive ']'
++ VIRTUAL_ENV=/home/omero/workspace/OMERO-guides-push/build/venv
++ export VIRTUAL_ENV
++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
++ PATH=/home/omero/workspace/OMERO-guides-push/build/venv/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
++ export PATH
++ '[' -n '' ']'
++ '[' -z '' ']'
++ _OLD_VIRTUAL_PS1=
++ PS1='(venv) '
++ export PS1
++ VIRTUAL_ENV_PROMPT='(venv) '
++ export VIRTUAL_ENV_PROMPT
++ hash -r
+ '[' merge_ci '!=' null ']'
+ export PUSH_BRANCH=merge_ci
+ PUSH_BRANCH=merge_ci
+ '[' null '!=' null ']'
+ export STATUS=success-only 'MERGE_OPTIONS=-vvv --no-ask --reset --comment'
+ STATUS=success-only
+ MERGE_OPTIONS='-vvv --no-ask --reset --comment'
+ bash build/build-infra-master/recursive-merge
Merge base repository (no submodule updates)
2026-05-01 10:38:27,385 [ scc.config] DEBUG Found github.token
2026-05-01 10:38:27,386 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2026-05-01 10:38:27,619 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:28,051 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:28,599 [urllib3.conn] DEBUG https://api.github.com:443 "GET /rate_limit HTTP/1.1" 200 None
2026-05-01 10:38:28,600 [ scc.gh] DEBUG 4588 remaining from 5000 (Reset at 11:05
2026-05-01 10:38:28,600 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:28,603 [ scc.git] DEBUG Check current status
2026-05-01 10:38:28,603 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:28,605 [ scc.git] DEBUG 6be1bbd Merge pull request #301 from pwalczysko/external-guides
2026-05-01 10:38:28,605 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:28,645 [ scc.git] DEBUG 248e8cbfb0372b3d3be2d82cfe9234dd2e25c140 cellprofiler (v0.4.0-32-g248e8cb)
2026-05-01 10:38:28,653 [ scc.git] DEBUG 4b1b912438f7415faf2d1f618d596968121bcfe8 download (4b1b912)
2026-05-01 10:38:28,656 [ scc.git] DEBUG 654d43b5ef64f56bd6a99c69a9c98cbb5c8f76a7 figure (v0.1.0-55-g654d43b)
2026-05-01 10:38:28,659 [ scc.git] DEBUG 218b05a197695f01d8fc3d2cc6d197981df701c9 fiji (v0.2.1-86-g218b05a)
2026-05-01 10:38:28,668 [ scc.git] DEBUG 8f4b1035592a83dacf55e5cb585fd6ebe775f7f4 fpbioimage (heads/master)
2026-05-01 10:38:28,670 [ scc.git] DEBUG f7b4afbe7c171a2063a46916851a26a84b83c4e6 ilastik (v0.3.4-2-gf7b4afb)
2026-05-01 10:38:28,679 [ scc.git] DEBUG d9033638b26778db35de1c77428190ac4cad1936 introduction (heads/master)
2026-05-01 10:38:28,687 [ scc.git] DEBUG 6ed80b33e8ddc97c930e3ea8ba00702f34e0a8ed iviewer (heads/master)
2026-05-01 10:38:28,690 [ scc.git] DEBUG a4b6b55205d0588c48baa8177aa7608fd40b3f85 java (v0.1.1-17-ga4b6b55)
2026-05-01 10:38:28,692 [ scc.git] DEBUG ecbd07c31df9b103937f4803aa35f104480365f2 matlab (v0.1.0-26-gecbd07c)
2026-05-01 10:38:28,701 [ scc.git] DEBUG d43e17feb8400f35a51d20e050b8a87bcdbcd1eb mde (heads/master)
2026-05-01 10:38:28,709 [ scc.git] DEBUG 4ef1eaaf315bbb8ae56e9ea780971735dc406f46 orbit (heads/master)
2026-05-01 10:38:28,718 [ scc.git] DEBUG 0875cf1cbb43411bfd5849763da8fe7d2bdafdc0 parade (0875cf1)
2026-05-01 10:38:28,721 [ scc.git] DEBUG 5ba303a4f2ace9cd09645ad1915368f1ea2b283f python (v0.3.0-96-g5ba303a)
2026-05-01 10:38:28,729 [ scc.git] DEBUG 6db8b1ceb6e7a44eb6145b4976fb3e048b04ee4f qupath (heads/master)
2026-05-01 10:38:28,732 [ scc.git] DEBUG a770a1048469668b66f5bde686d5b6d84d021e6d r (v0.1.0-24-ga770a10)
2026-05-01 10:38:28,740 [ scc.git] DEBUG 6133d50509750bccdb809e0089bd5c717357d379 scripts (heads/master)
2026-05-01 10:38:28,748 [ scc.git] DEBUG ffe98a8835c0f1bf345cb9ec0cfd2ba4aa304bd1 trackmate (heads/master)
2026-05-01 10:38:28,751 [ scc.git] DEBUG 6a5e0152c1b372ebb146803c7421c95b42474200 upload (v0.1.0-98-g6a5e015)
2026-05-01 10:38:28,754 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:29,123 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides HTTP/1.1" 200 None
2026-05-01 10:38:29,640 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:30,091 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:30,534 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:30,978 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:30,979 [ scc.git] DEBUG Resetting...
2026-05-01 10:38:30,979 [ scc.git] DEBUG Calling 'git reset --hard HEAD'
2026-05-01 10:38:30,987 [ scc.git] DEBUG HEAD is now at 6be1bbd Merge pull request #301 from pwalczysko/external-guides
2026-05-01 10:38:30,987 [ scc.git] DEBUG Calling 'git submodule update --recursive'
2026-05-01 10:38:31,077 [ scc.git] DEBUG Check current status
2026-05-01 10:38:31,077 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:31,080 [ scc.git] DEBUG 6be1bbd Merge pull request #301 from pwalczysko/external-guides
2026-05-01 10:38:31,080 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:31,118 [ scc.git] DEBUG 248e8cbfb0372b3d3be2d82cfe9234dd2e25c140 cellprofiler (v0.4.0-32-g248e8cb)
2026-05-01 10:38:31,127 [ scc.git] DEBUG 4b1b912438f7415faf2d1f618d596968121bcfe8 download (4b1b912)
2026-05-01 10:38:31,129 [ scc.git] DEBUG 654d43b5ef64f56bd6a99c69a9c98cbb5c8f76a7 figure (v0.1.0-55-g654d43b)
2026-05-01 10:38:31,133 [ scc.git] DEBUG 218b05a197695f01d8fc3d2cc6d197981df701c9 fiji (v0.2.1-86-g218b05a)
2026-05-01 10:38:31,141 [ scc.git] DEBUG 8f4b1035592a83dacf55e5cb585fd6ebe775f7f4 fpbioimage (heads/master)
2026-05-01 10:38:31,143 [ scc.git] DEBUG f7b4afbe7c171a2063a46916851a26a84b83c4e6 ilastik (v0.3.4-2-gf7b4afb)
2026-05-01 10:38:31,152 [ scc.git] DEBUG d9033638b26778db35de1c77428190ac4cad1936 introduction (heads/master)
2026-05-01 10:38:31,160 [ scc.git] DEBUG 6ed80b33e8ddc97c930e3ea8ba00702f34e0a8ed iviewer (heads/master)
2026-05-01 10:38:31,162 [ scc.git] DEBUG a4b6b55205d0588c48baa8177aa7608fd40b3f85 java (v0.1.1-17-ga4b6b55)
2026-05-01 10:38:31,165 [ scc.git] DEBUG ecbd07c31df9b103937f4803aa35f104480365f2 matlab (v0.1.0-26-gecbd07c)
2026-05-01 10:38:31,173 [ scc.git] DEBUG d43e17feb8400f35a51d20e050b8a87bcdbcd1eb mde (heads/master)
2026-05-01 10:38:31,181 [ scc.git] DEBUG 4ef1eaaf315bbb8ae56e9ea780971735dc406f46 orbit (heads/master)
2026-05-01 10:38:31,189 [ scc.git] DEBUG 0875cf1cbb43411bfd5849763da8fe7d2bdafdc0 parade (0875cf1)
2026-05-01 10:38:31,192 [ scc.git] DEBUG 5ba303a4f2ace9cd09645ad1915368f1ea2b283f python (v0.3.0-96-g5ba303a)
2026-05-01 10:38:31,200 [ scc.git] DEBUG 6db8b1ceb6e7a44eb6145b4976fb3e048b04ee4f qupath (heads/master)
2026-05-01 10:38:31,203 [ scc.git] DEBUG a770a1048469668b66f5bde686d5b6d84d021e6d r (v0.1.0-24-ga770a10)
2026-05-01 10:38:31,211 [ scc.git] DEBUG 6133d50509750bccdb809e0089bd5c717357d379 scripts (heads/master)
2026-05-01 10:38:31,219 [ scc.git] DEBUG ffe98a8835c0f1bf345cb9ec0cfd2ba4aa304bd1 trackmate (heads/master)
2026-05-01 10:38:31,222 [ scc.git] DEBUG 6a5e0152c1b372ebb146803c7421c95b42474200 upload (v0.1.0-98-g6a5e015)
2026-05-01 10:38:31,223 [ scc.merge] INFO Merging Pull Request(s) based on master
2026-05-01 10:38:31,223 [ scc.merge] INFO Including Pull Request(s) opened by any public member of the organization
2026-05-01 10:38:31,223 [ scc.merge] INFO Including Pull Request(s) labelled as include or dependencies
2026-05-01 10:38:31,223 [ scc.merge] INFO Excluding Pull Request(s) staged as draft
2026-05-01 10:38:31,223 [ scc.merge] INFO Excluding Pull Request(s) labelled as exclude or breaking
2026-05-01 10:38:31,223 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:38:31,564 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/pulls HTTP/1.1" 200 None
2026-05-01 10:38:32,080 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/issues/305 HTTP/1.1" 200 None
2026-05-01 10:38:32,080 [ scc.repo] DEBUG # ... Include label: dependencies
2026-05-01 10:38:32,080 [ scc.repo] DEBUG - PR 305 dependabot[bot] 'Bump parade from `0875cf1` to `908b335`'
2026-05-01 10:38:32,581 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/issues/304 HTTP/1.1" 200 None
2026-05-01 10:38:32,581 [ scc.repo] DEBUG # ... Include label: dependencies
2026-05-01 10:38:32,581 [ scc.repo] DEBUG - PR 304 dependabot[bot] 'Bump python from `5ba303a` to `17536a9`'
2026-05-01 10:38:33,121 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/issues/303 HTTP/1.1" 200 None
2026-05-01 10:38:33,121 [ scc.repo] DEBUG # ... Include label: dependencies
2026-05-01 10:38:33,121 [ scc.repo] DEBUG - PR 303 dependabot[bot] 'Bump fiji from `218b05a` to `86f00e3`'
2026-05-01 10:38:33,122 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:38:33,122 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:38:33,122 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:38:33,124 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:38:33,126 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:38:33,126 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:38:33,129 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:38:33,131 [ scc.git] DEBUG Already up to date.
2026-05-01 10:38:33,131 [ scc.git] DEBUG Calling 'git fetch origin pull/303/head'
2026-05-01 10:38:33,413 [ scc.git] DEBUG From https://github.com/ome/omero-guides
2026-05-01 10:38:33,413 [ scc.git] DEBUG * branch refs/pull/303/head -> FETCH_HEAD
2026-05-01 10:38:33,417 [ scc.git] DEBUG Calling 'git fetch origin pull/304/head'
2026-05-01 10:38:33,751 [ scc.git] DEBUG From https://github.com/ome/omero-guides
2026-05-01 10:38:33,751 [ scc.git] DEBUG * branch refs/pull/304/head -> FETCH_HEAD
2026-05-01 10:38:33,756 [ scc.git] DEBUG Calling 'git fetch origin pull/305/head'
2026-05-01 10:38:34,061 [ scc.git] DEBUG From https://github.com/ome/omero-guides
2026-05-01 10:38:34,061 [ scc.git] DEBUG * branch refs/pull/305/head -> FETCH_HEAD
2026-05-01 10:38:34,065 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:38:34,065 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:38:34,065 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:38:34,068 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...231cbb7ea1113bb4fde03b88d93ae9426f976e6d'
2026-05-01 10:38:34,070 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:38:34,072 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Snone: PR 303 (Bump fiji from `218b05a` to `86f00e3`) 231cbb7ea1113bb4fde03b88d93ae9426f976e6d'
2026-05-01 10:38:34,086 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:38:34,088 [ scc.git] DEBUG fiji | 2 +-
2026-05-01 10:38:34,088 [ scc.git] DEBUG 1 file changed, 1 insertion(+), 1 deletion(-)
2026-05-01 10:38:34,282 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:34,283 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...a94bb77eca798ac020dc0738856bd211a17b958a'
2026-05-01 10:38:34,286 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:38:34,288 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Snone: PR 304 (Bump python from `5ba303a` to `17536a9`) a94bb77eca798ac020dc0738856bd211a17b958a'
2026-05-01 10:38:34,347 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:38:34,350 [ scc.git] DEBUG python | 2 +-
2026-05-01 10:38:34,350 [ scc.git] DEBUG 1 file changed, 1 insertion(+), 1 deletion(-)
2026-05-01 10:38:34,721 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:34,721 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...150c7210dc5f13e4b062846f400ebc253a2d6f9c'
2026-05-01 10:38:34,775 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:38:34,777 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Snone: PR 305 (Bump parade from `0875cf1` to `908b335`) 150c7210dc5f13e4b062846f400ebc253a2d6f9c'
2026-05-01 10:38:34,792 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:38:34,794 [ scc.git] DEBUG parade | 2 +-
2026-05-01 10:38:34,795 [ scc.git] DEBUG 1 file changed, 1 insertion(+), 1 deletion(-)
2026-05-01 10:38:35,303 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:35,303 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:38:35,372 [ scc.git] DEBUG Submodule path 'fiji': checked out '86f00e3e570d62226b02da1dc0cc639c389c7104'
2026-05-01 10:38:35,381 [ scc.git] DEBUG Submodule path 'parade': checked out '908b3356722bb23aafe103d87f8675f80fbaa5ed'
2026-05-01 10:38:35,482 [ scc.git] DEBUG Submodule path 'python': checked out '17536a9e5f83241b2ca7eff9f26ce28b77958cf5'
2026-05-01 10:38:35,482 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:38:35,483 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:38:35,485 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:38:36,162 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f1d311f9990> has no local changes
2026-05-01 10:38:36,162 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Snone
Repository: ome/omero-guides
Excluded PRs:
- PR 23 jburel 'Remove submodules' (exclude comment)
Already up to date.
Merged PRs:
- PR 303 dependabot[bot] 'Bump fiji from `218b05a` to `86f00e3`'
- PR 304 dependabot[bot] 'Bump python from `5ba303a` to `17536a9`'
- PR 305 dependabot[bot] 'Bump parade from `0875cf1` to `908b335`'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:38:36,218 [ scc.git] DEBUG [detached HEAD 481ccc6] merge master -Dorg -Snone
2026-05-01 10:38:36,219 [ scc.merge] INFO Repository: ome/omero-guides
2026-05-01 10:38:36,219 [ scc.merge] INFO Excluded PRs:
2026-05-01 10:38:36,219 [ scc.merge] INFO - PR 23 jburel 'Remove submodules' (exclude comment)
2026-05-01 10:38:36,219 [ scc.merge] INFO Already up to date.
2026-05-01 10:38:36,219 [ scc.merge] INFO
2026-05-01 10:38:36,219 [ scc.merge] INFO Merged PRs:
2026-05-01 10:38:36,219 [ scc.merge] INFO - PR 303 dependabot[bot] 'Bump fiji from `218b05a` to `86f00e3`'
2026-05-01 10:38:36,219 [ scc.merge] INFO - PR 304 dependabot[bot] 'Bump python from `5ba303a` to `17536a9`'
2026-05-01 10:38:36,219 [ scc.merge] INFO - PR 305 dependabot[bot] 'Bump parade from `0875cf1` to `908b335`'
2026-05-01 10:38:36,219 [ scc.merge] INFO
2026-05-01 10:38:36,219 [ scc.merge] DEBUG Cleaning remote branches created for merging
2026-05-01 10:38:36,219 [ scc.git] DEBUG Calling 'git remote'
Synchronizing submodule url for 'cellprofiler'
Synchronizing submodule url for 'download'
Synchronizing submodule url for 'figure'
Synchronizing submodule url for 'fiji'
Synchronizing submodule url for 'fpbioimage'
Synchronizing submodule url for 'ilastik'
Synchronizing submodule url for 'introduction'
Synchronizing submodule url for 'iviewer'
Synchronizing submodule url for 'java'
Synchronizing submodule url for 'matlab'
Synchronizing submodule url for 'mde'
Synchronizing submodule url for 'orbit'
Synchronizing submodule url for 'parade'
Synchronizing submodule url for 'python'
Synchronizing submodule url for 'qupath'
Synchronizing submodule url for 'r'
Synchronizing submodule url for 'scripts'
Synchronizing submodule url for 'trackmate'
Synchronizing submodule url for 'upload'
Submodule path 'download': checked out 'a27d196bee4a96b586246dc5d94ef07db7c5c0f8'
Submodule path 'ilastik': checked out 'c0bbd4292f8e5141db088fe9a5a5eef41a61e602'
Merge all submodules2026-05-01 10:38:43,399 [ scc.config] DEBUG Found github.token
2026-05-01 10:38:43,400 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2026-05-01 10:38:43,653 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:44,084 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:38:44,477 [urllib3.conn] DEBUG https://api.github.com:443 "GET /rate_limit HTTP/1.1" 200 None
2026-05-01 10:38:44,478 [ scc.gh] DEBUG 4581 remaining from 5000 (Reset at 11:05
2026-05-01 10:38:44,479 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:44,481 [ scc.git] DEBUG Check current status
2026-05-01 10:38:44,481 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:44,483 [ scc.git] DEBUG 481ccc6 merge master -Dorg -Snone
2026-05-01 10:38:44,484 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:44,521 [ scc.git] DEBUG 248e8cbfb0372b3d3be2d82cfe9234dd2e25c140 cellprofiler (v0.4.0-32-g248e8cb)
2026-05-01 10:38:44,530 [ scc.git] DEBUG +a27d196bee4a96b586246dc5d94ef07db7c5c0f8 download (heads/master)
2026-05-01 10:38:44,532 [ scc.git] DEBUG 654d43b5ef64f56bd6a99c69a9c98cbb5c8f76a7 figure (v0.1.0-55-g654d43b)
2026-05-01 10:38:44,536 [ scc.git] DEBUG 86f00e3e570d62226b02da1dc0cc639c389c7104 fiji (v0.2.1-89-g86f00e3)
2026-05-01 10:38:44,544 [ scc.git] DEBUG 8f4b1035592a83dacf55e5cb585fd6ebe775f7f4 fpbioimage (heads/master)
2026-05-01 10:38:44,605 [ scc.git] DEBUG +c0bbd4292f8e5141db088fe9a5a5eef41a61e602 ilastik (v0.3.4-14-gc0bbd42)
2026-05-01 10:38:44,614 [ scc.git] DEBUG d9033638b26778db35de1c77428190ac4cad1936 introduction (heads/master)
2026-05-01 10:38:44,622 [ scc.git] DEBUG 6ed80b33e8ddc97c930e3ea8ba00702f34e0a8ed iviewer (heads/master)
2026-05-01 10:38:44,624 [ scc.git] DEBUG a4b6b55205d0588c48baa8177aa7608fd40b3f85 java (v0.1.1-17-ga4b6b55)
2026-05-01 10:38:44,627 [ scc.git] DEBUG ecbd07c31df9b103937f4803aa35f104480365f2 matlab (v0.1.0-26-gecbd07c)
2026-05-01 10:38:44,636 [ scc.git] DEBUG d43e17feb8400f35a51d20e050b8a87bcdbcd1eb mde (heads/master)
2026-05-01 10:38:44,644 [ scc.git] DEBUG 4ef1eaaf315bbb8ae56e9ea780971735dc406f46 orbit (heads/master)
2026-05-01 10:38:44,652 [ scc.git] DEBUG 908b3356722bb23aafe103d87f8675f80fbaa5ed parade (heads/master)
2026-05-01 10:38:44,667 [ scc.git] DEBUG 17536a9e5f83241b2ca7eff9f26ce28b77958cf5 python (v0.3.0-105-g17536a9)
2026-05-01 10:38:44,675 [ scc.git] DEBUG 6db8b1ceb6e7a44eb6145b4976fb3e048b04ee4f qupath (heads/master)
2026-05-01 10:38:44,678 [ scc.git] DEBUG a770a1048469668b66f5bde686d5b6d84d021e6d r (v0.1.0-24-ga770a10)
2026-05-01 10:38:44,686 [ scc.git] DEBUG 6133d50509750bccdb809e0089bd5c717357d379 scripts (heads/master)
2026-05-01 10:38:44,694 [ scc.git] DEBUG ffe98a8835c0f1bf345cb9ec0cfd2ba4aa304bd1 trackmate (heads/master)
2026-05-01 10:38:44,697 [ scc.git] DEBUG 6a5e0152c1b372ebb146803c7421c95b42474200 upload (v0.1.0-98-g6a5e015)
2026-05-01 10:38:44,699 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:44,982 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides HTTP/1.1" 200 None
2026-05-01 10:38:45,504 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:45,947 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:46,429 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:46,910 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:46,912 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:38:46,977 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/cellprofiler
2026-05-01 10:38:46,977 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:46,979 [ scc.git] DEBUG Check current status
2026-05-01 10:38:46,979 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:46,981 [ scc.git] DEBUG 248e8cb Merge pull request #23 from jburel/rtd_build
2026-05-01 10:38:46,981 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:47,020 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:47,416 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler HTTP/1.1" 200 None
2026-05-01 10:38:47,905 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:48,360 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:48,806 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:49,251 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:49,252 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:38:49,291 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:38:49,292 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/download
2026-05-01 10:38:49,292 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:49,294 [ scc.git] DEBUG Check current status
2026-05-01 10:38:49,294 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:49,296 [ scc.git] DEBUG a27d196 Fix build failure on rtd
2026-05-01 10:38:49,296 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:49,335 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:49,831 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-download HTTP/1.1" 200 None
2026-05-01 10:38:50,328 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:50,775 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:51,225 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:51,680 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:51,681 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:38:51,720 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:38:51,721 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/figure
2026-05-01 10:38:51,721 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:51,723 [ scc.git] DEBUG Check current status
2026-05-01 10:38:51,723 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:51,725 [ scc.git] DEBUG 654d43b Merge pull request #16 from jburel/rtd_build
2026-05-01 10:38:51,726 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:51,764 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:52,262 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure HTTP/1.1" 200 None
2026-05-01 10:38:52,758 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:53,216 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:53,664 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:54,105 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:54,106 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:38:54,144 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:38:54,145 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/fiji
2026-05-01 10:38:54,145 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:54,147 [ scc.git] DEBUG Check current status
2026-05-01 10:38:54,147 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:54,149 [ scc.git] DEBUG 86f00e3 Merge pull request #33 from will-moore/bdv_mobie_update
2026-05-01 10:38:54,150 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:54,189 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:54,694 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji HTTP/1.1" 200 None
2026-05-01 10:38:55,283 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:55,740 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:56,194 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:56,647 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:56,648 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:38:56,687 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:38:56,687 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/fpbioimage
2026-05-01 10:38:56,687 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:56,689 [ scc.git] DEBUG Check current status
2026-05-01 10:38:56,689 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:56,691 [ scc.git] DEBUG 8f4b103 remove sphinx job following migration to rtd
2026-05-01 10:38:56,691 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:56,730 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:57,210 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fpbioimage HTTP/1.1" 200 None
2026-05-01 10:38:57,729 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:38:58,177 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:38:58,636 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:38:59,087 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:38:59,088 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:38:59,128 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:38:59,128 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/ilastik
2026-05-01 10:38:59,128 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:38:59,130 [ scc.git] DEBUG Check current status
2026-05-01 10:38:59,130 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:38:59,133 [ scc.git] DEBUG c0bbd42 Merge pull request #41 from pwalczysko/s3
2026-05-01 10:38:59,133 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:38:59,172 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:38:59,622 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-ilastik HTTP/1.1" 200 None
2026-05-01 10:39:00,131 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:00,589 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:01,050 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:01,501 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:01,502 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:01,539 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:01,540 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/introduction
2026-05-01 10:39:01,540 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:01,542 [ scc.git] DEBUG Check current status
2026-05-01 10:39:01,542 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:01,544 [ scc.git] DEBUG d903363 Merge pull request #26 from jburel/rtd_build
2026-05-01 10:39:01,544 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:01,581 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:02,100 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-introduction HTTP/1.1" 200 None
2026-05-01 10:39:02,612 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:03,054 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:03,493 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:03,938 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:03,939 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:03,977 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:03,977 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/iviewer
2026-05-01 10:39:03,977 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:03,980 [ scc.git] DEBUG Check current status
2026-05-01 10:39:03,980 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:03,982 [ scc.git] DEBUG 6ed80b3 Merge pull request #13 from jburel/rtd_build
2026-05-01 10:39:03,982 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:04,019 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:04,566 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-iviewer HTTP/1.1" 200 None
2026-05-01 10:39:05,096 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:05,557 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:06,022 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:06,463 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:06,465 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:06,502 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:06,502 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/java
2026-05-01 10:39:06,502 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:06,504 [ scc.git] DEBUG Check current status
2026-05-01 10:39:06,504 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:06,507 [ scc.git] DEBUG a4b6b55 Remove badge for sphinx
2026-05-01 10:39:06,507 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:06,546 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:07,097 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java HTTP/1.1" 200 None
2026-05-01 10:39:07,605 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:08,062 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:08,514 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:08,962 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:08,963 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:09,000 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:09,000 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/matlab
2026-05-01 10:39:09,000 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:09,002 [ scc.git] DEBUG Check current status
2026-05-01 10:39:09,002 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:09,005 [ scc.git] DEBUG ecbd07c Merge pull request #5 from pwalczysko/matlab-online
2026-05-01 10:39:09,005 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:09,042 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:09,541 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-matlab HTTP/1.1" 200 None
2026-05-01 10:39:10,031 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:10,490 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:10,954 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:11,415 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:11,416 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:11,452 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:11,453 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/mde
2026-05-01 10:39:11,453 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:11,455 [ scc.git] DEBUG Check current status
2026-05-01 10:39:11,455 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:11,457 [ scc.git] DEBUG d43e17f Merge pull request #5 from jburel/rtd_build
2026-05-01 10:39:11,457 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:11,494 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:11,979 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde HTTP/1.1" 200 None
2026-05-01 10:39:12,464 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:12,960 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:13,423 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:13,869 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:13,870 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:13,908 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:13,908 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/orbit
2026-05-01 10:39:13,908 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:13,910 [ scc.git] DEBUG Check current status
2026-05-01 10:39:13,910 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:13,913 [ scc.git] DEBUG 4ef1eaa Update actions to v3 and v4
2026-05-01 10:39:13,913 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:13,950 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:14,468 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-orbit HTTP/1.1" 200 None
2026-05-01 10:39:14,991 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:15,475 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:15,922 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:16,410 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:16,411 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:16,451 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:16,451 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/parade
2026-05-01 10:39:16,451 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:16,454 [ scc.git] DEBUG Check current status
2026-05-01 10:39:16,454 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:16,456 [ scc.git] DEBUG 908b335 Merge pull request #1 from ome/rtd_build
2026-05-01 10:39:16,456 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:16,494 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:16,996 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-parade HTTP/1.1" 200 None
2026-05-01 10:39:17,501 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:17,957 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:18,416 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:18,862 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:18,863 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:18,900 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:18,900 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/python
2026-05-01 10:39:18,900 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:18,902 [ scc.git] DEBUG Check current status
2026-05-01 10:39:18,902 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:18,905 [ scc.git] DEBUG 17536a9 Merge pull request #63 from pwalczysko/s3
2026-05-01 10:39:18,905 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:18,943 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:19,430 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-python HTTP/1.1" 200 None
2026-05-01 10:39:19,936 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:20,402 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:20,865 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:21,318 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:21,319 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:21,355 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:21,356 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/qupath
2026-05-01 10:39:21,356 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:21,358 [ scc.git] DEBUG Check current status
2026-05-01 10:39:21,358 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:21,360 [ scc.git] DEBUG 6db8b1c Merge pull request #11 from jburel/installation
2026-05-01 10:39:21,360 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:21,397 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:21,893 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-qupath HTTP/1.1" 200 None
2026-05-01 10:39:22,425 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:22,881 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:23,322 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:23,781 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:23,782 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:23,820 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:23,820 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/r
2026-05-01 10:39:23,820 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:23,822 [ scc.git] DEBUG Check current status
2026-05-01 10:39:23,822 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:23,824 [ scc.git] DEBUG a770a10 Remove sphinx badge
2026-05-01 10:39:23,825 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:23,863 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:24,353 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r HTTP/1.1" 200 None
2026-05-01 10:39:24,885 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:25,339 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:25,787 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:26,255 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:26,257 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:26,294 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:26,294 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/scripts
2026-05-01 10:39:26,294 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:26,297 [ scc.git] DEBUG Check current status
2026-05-01 10:39:26,297 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:26,299 [ scc.git] DEBUG 6133d50 Merge pull request #4 from Rdornier/import-from-csv-fix
2026-05-01 10:39:26,299 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:26,337 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:26,828 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-scripts HTTP/1.1" 200 None
2026-05-01 10:39:27,314 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:27,766 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:28,239 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:28,709 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:28,710 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:28,748 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:28,749 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/trackmate
2026-05-01 10:39:28,749 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:28,751 [ scc.git] DEBUG Check current status
2026-05-01 10:39:28,751 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:28,753 [ scc.git] DEBUG ffe98a8 Merge pull request #5 from jburel/rtd_build
2026-05-01 10:39:28,753 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:28,791 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:29,291 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-trackmate HTTP/1.1" 200 None
2026-05-01 10:39:29,784 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:30,233 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:30,678 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:31,124 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:31,125 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:31,165 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:31,165 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/upload
2026-05-01 10:39:31,165 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2026-05-01 10:39:31,168 [ scc.git] DEBUG Check current status
2026-05-01 10:39:31,168 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:31,170 [ scc.git] DEBUG 6a5e015 Merge pull request #19 from pwalczysko/update-insight-download
2026-05-01 10:39:31,170 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:31,209 [ scc.config] DEBUG Found remote.origin.url
2026-05-01 10:39:31,686 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-upload HTTP/1.1" 200 None
2026-05-01 10:39:32,197 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome HTTP/1.1" 200 None
2026-05-01 10:39:32,643 [urllib3.conn] DEBUG https://api.github.com:443 "GET /orgs/ome/members HTTP/1.1" 200 None
2026-05-01 10:39:33,095 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=2 HTTP/1.1" 200 None
2026-05-01 10:39:33,545 [urllib3.conn] DEBUG https://api.github.com:443 "GET /organizations/1831717/members?page=3 HTTP/1.1" 200 None
2026-05-01 10:39:33,546 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:33,583 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:33,583 [ scc.git] DEBUG Resetting...
2026-05-01 10:39:33,584 [ scc.git] DEBUG Calling 'git reset --hard HEAD'
2026-05-01 10:39:33,590 [ scc.git] DEBUG HEAD is now at 481ccc6 merge master -Dorg -Snone
2026-05-01 10:39:33,590 [ scc.git] DEBUG Calling 'git submodule update --recursive'
2026-05-01 10:39:33,639 [ scc.git] DEBUG Submodule path 'download': checked out '4b1b912438f7415faf2d1f618d596968121bcfe8'
2026-05-01 10:39:33,660 [ scc.git] DEBUG Submodule path 'ilastik': checked out 'f7b4afbe7c171a2063a46916851a26a84b83c4e6'
2026-05-01 10:39:33,698 [ scc.git] DEBUG Check current status
2026-05-01 10:39:33,698 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2026-05-01 10:39:33,700 [ scc.git] DEBUG 481ccc6 merge master -Dorg -Snone
2026-05-01 10:39:33,700 [ scc.git] DEBUG Calling 'git submodule status'
2026-05-01 10:39:33,737 [ scc.git] DEBUG 248e8cbfb0372b3d3be2d82cfe9234dd2e25c140 cellprofiler (v0.4.0-32-g248e8cb)
2026-05-01 10:39:33,745 [ scc.git] DEBUG 4b1b912438f7415faf2d1f618d596968121bcfe8 download (4b1b912)
2026-05-01 10:39:33,748 [ scc.git] DEBUG 654d43b5ef64f56bd6a99c69a9c98cbb5c8f76a7 figure (v0.1.0-55-g654d43b)
2026-05-01 10:39:33,751 [ scc.git] DEBUG 86f00e3e570d62226b02da1dc0cc639c389c7104 fiji (v0.2.1-89-g86f00e3)
2026-05-01 10:39:33,759 [ scc.git] DEBUG 8f4b1035592a83dacf55e5cb585fd6ebe775f7f4 fpbioimage (heads/master)
2026-05-01 10:39:33,761 [ scc.git] DEBUG f7b4afbe7c171a2063a46916851a26a84b83c4e6 ilastik (v0.3.4-2-gf7b4afb)
2026-05-01 10:39:33,769 [ scc.git] DEBUG d9033638b26778db35de1c77428190ac4cad1936 introduction (heads/master)
2026-05-01 10:39:33,777 [ scc.git] DEBUG 6ed80b33e8ddc97c930e3ea8ba00702f34e0a8ed iviewer (heads/master)
2026-05-01 10:39:33,780 [ scc.git] DEBUG a4b6b55205d0588c48baa8177aa7608fd40b3f85 java (v0.1.1-17-ga4b6b55)
2026-05-01 10:39:33,783 [ scc.git] DEBUG ecbd07c31df9b103937f4803aa35f104480365f2 matlab (v0.1.0-26-gecbd07c)
2026-05-01 10:39:33,791 [ scc.git] DEBUG d43e17feb8400f35a51d20e050b8a87bcdbcd1eb mde (heads/master)
2026-05-01 10:39:33,799 [ scc.git] DEBUG 4ef1eaaf315bbb8ae56e9ea780971735dc406f46 orbit (heads/master)
2026-05-01 10:39:33,807 [ scc.git] DEBUG 908b3356722bb23aafe103d87f8675f80fbaa5ed parade (heads/master)
2026-05-01 10:39:33,810 [ scc.git] DEBUG 17536a9e5f83241b2ca7eff9f26ce28b77958cf5 python (v0.3.0-105-g17536a9)
2026-05-01 10:39:33,818 [ scc.git] DEBUG 6db8b1ceb6e7a44eb6145b4976fb3e048b04ee4f qupath (heads/master)
2026-05-01 10:39:33,821 [ scc.git] DEBUG a770a1048469668b66f5bde686d5b6d84d021e6d r (v0.1.0-24-ga770a10)
2026-05-01 10:39:33,829 [ scc.git] DEBUG 6133d50509750bccdb809e0089bd5c717357d379 scripts (heads/master)
2026-05-01 10:39:33,838 [ scc.git] DEBUG ffe98a8835c0f1bf345cb9ec0cfd2ba4aa304bd1 trackmate (heads/master)
2026-05-01 10:39:33,841 [ scc.git] DEBUG 6a5e0152c1b372ebb146803c7421c95b42474200 upload (v0.1.0-98-g6a5e015)
2026-05-01 10:39:33,841 [ scc.merge] INFO Merging Pull Request(s) based on master
2026-05-01 10:39:33,842 [ scc.merge] INFO Including Pull Request(s) opened by any public member of the organization
2026-05-01 10:39:33,842 [ scc.merge] INFO Including Pull Request(s) labelled as include or dependencies
2026-05-01 10:39:33,842 [ scc.merge] INFO Excluding Pull Request(s) staged as draft
2026-05-01 10:39:33,842 [ scc.merge] INFO Excluding Pull Request(s) labelled as exclude or breaking
2026-05-01 10:39:33,842 [ scc.merge] INFO Excluding Pull Request(s) without successful status
2026-05-01 10:39:33,842 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:39:34,161 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/pulls HTTP/1.1" 200 None
2026-05-01 10:39:34,668 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/issues/305 HTTP/1.1" 200 None
2026-05-01 10:39:34,669 [ scc.repo] DEBUG # ... Include label: dependencies
2026-05-01 10:39:35,286 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/150c7210dc5f13e4b062846f400ebc253a2d6f9c?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:35,809 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/150c7210dc5f13e4b062846f400ebc253a2d6f9c/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:36,288 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/150c7210dc5f13e4b062846f400ebc253a2d6f9c?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:36,766 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/statuses/150c7210dc5f13e4b062846f400ebc253a2d6f9c?per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:37,303 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/150c7210dc5f13e4b062846f400ebc253a2d6f9c?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:37,801 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/150c7210dc5f13e4b062846f400ebc253a2d6f9c/status HTTP/1.1" 200 None
2026-05-01 10:39:37,802 [ scc.repo] DEBUG - PR 305 dependabot[bot] 'Bump parade from `0875cf1` to `908b335`'
2026-05-01 10:39:38,306 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/issues/304 HTTP/1.1" 200 None
2026-05-01 10:39:38,307 [ scc.repo] DEBUG # ... Include label: dependencies
2026-05-01 10:39:38,911 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/a94bb77eca798ac020dc0738856bd211a17b958a?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:39,428 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/a94bb77eca798ac020dc0738856bd211a17b958a/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:39,929 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/a94bb77eca798ac020dc0738856bd211a17b958a?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:40,398 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/statuses/a94bb77eca798ac020dc0738856bd211a17b958a?per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:40,898 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/a94bb77eca798ac020dc0738856bd211a17b958a?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:41,404 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/a94bb77eca798ac020dc0738856bd211a17b958a/status HTTP/1.1" 200 None
2026-05-01 10:39:41,405 [ scc.repo] DEBUG - PR 304 dependabot[bot] 'Bump python from `5ba303a` to `17536a9`'
2026-05-01 10:39:41,959 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/issues/303 HTTP/1.1" 200 None
2026-05-01 10:39:41,960 [ scc.repo] DEBUG # ... Include label: dependencies
2026-05-01 10:39:42,602 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/231cbb7ea1113bb4fde03b88d93ae9426f976e6d?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:43,109 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/231cbb7ea1113bb4fde03b88d93ae9426f976e6d/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:43,600 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/231cbb7ea1113bb4fde03b88d93ae9426f976e6d?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:44,064 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/statuses/231cbb7ea1113bb4fde03b88d93ae9426f976e6d?per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:44,542 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/231cbb7ea1113bb4fde03b88d93ae9426f976e6d?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:45,051 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides/commits/231cbb7ea1113bb4fde03b88d93ae9426f976e6d/status HTTP/1.1" 200 None
2026-05-01 10:39:45,052 [ scc.repo] DEBUG - PR 303 dependabot[bot] 'Bump fiji from `218b05a` to `86f00e3`'
2026-05-01 10:39:45,052 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:39:45,052 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:45,052 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:45,055 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:39:45,057 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:39:45,057 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:39:45,060 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:39:45,063 [ scc.git] DEBUG Already up to date.
2026-05-01 10:39:45,063 [ scc.git] DEBUG Calling 'git fetch origin pull/303/head'
2026-05-01 10:39:45,390 [ scc.git] DEBUG From https://github.com/ome/omero-guides
2026-05-01 10:39:45,390 [ scc.git] DEBUG * branch refs/pull/303/head -> FETCH_HEAD
2026-05-01 10:39:45,395 [ scc.git] DEBUG Calling 'git fetch origin pull/304/head'
2026-05-01 10:39:45,735 [ scc.git] DEBUG From https://github.com/ome/omero-guides
2026-05-01 10:39:45,735 [ scc.git] DEBUG * branch refs/pull/304/head -> FETCH_HEAD
2026-05-01 10:39:45,739 [ scc.git] DEBUG Calling 'git fetch origin pull/305/head'
2026-05-01 10:39:46,095 [ scc.git] DEBUG From https://github.com/ome/omero-guides
2026-05-01 10:39:46,095 [ scc.git] DEBUG * branch refs/pull/305/head -> FETCH_HEAD
2026-05-01 10:39:46,100 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:39:46,100 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:46,100 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:46,102 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...231cbb7ea1113bb4fde03b88d93ae9426f976e6d'
2026-05-01 10:39:46,105 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:46,107 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 303 (Bump fiji from `218b05a` to `86f00e3`) 231cbb7ea1113bb4fde03b88d93ae9426f976e6d'
2026-05-01 10:39:46,110 [ scc.git] DEBUG Already up to date.
2026-05-01 10:39:46,294 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:39:46,295 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...a94bb77eca798ac020dc0738856bd211a17b958a'
2026-05-01 10:39:46,297 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:46,299 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 304 (Bump python from `5ba303a` to `17536a9`) a94bb77eca798ac020dc0738856bd211a17b958a'
2026-05-01 10:39:46,302 [ scc.git] DEBUG Already up to date.
2026-05-01 10:39:46,741 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:39:46,742 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...150c7210dc5f13e4b062846f400ebc253a2d6f9c'
2026-05-01 10:39:46,744 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:46,746 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 305 (Bump parade from `0875cf1` to `908b335`) 150c7210dc5f13e4b062846f400ebc253a2d6f9c'
2026-05-01 10:39:46,748 [ scc.git] DEBUG Already up to date.
2026-05-01 10:39:47,225 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:39:47,225 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:39:47,272 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:47,272 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:47,274 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:39:47,790 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/pulls HTTP/1.1" 200 None
2026-05-01 10:39:48,294 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/issues/24 HTTP/1.1" 200 None
2026-05-01 10:39:48,809 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/issues/24/comments HTTP/1.1" 200 None
2026-05-01 10:39:49,360 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/commits/647d3d34fa15bd7aa6a1437fc63c92be3cbc8b25?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:49,867 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/commits/647d3d34fa15bd7aa6a1437fc63c92be3cbc8b25/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:50,361 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/commits/647d3d34fa15bd7aa6a1437fc63c92be3cbc8b25?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:50,828 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-cellprofiler/statuses/647d3d34fa15bd7aa6a1437fc63c92be3cbc8b25?per_page=1 HTTP/1.1" 200 2
2026-05-01 10:39:50,828 [ scc.repo] DEBUG - PR 24 jburel 'Remove binder'
2026-05-01 10:39:50,828 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:39:50,828 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/cellprofiler
2026-05-01 10:39:50,828 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:50,828 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:50,831 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:39:50,833 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:39:50,833 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:39:50,837 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:39:50,840 [ scc.git] DEBUG Already up to date.
2026-05-01 10:39:50,840 [ scc.git] DEBUG Calling 'git fetch origin pull/24/head'
2026-05-01 10:39:51,263 [ scc.git] DEBUG From https://github.com/ome/omero-guide-cellprofiler
2026-05-01 10:39:51,263 [ scc.git] DEBUG * branch refs/pull/24/head -> FETCH_HEAD
2026-05-01 10:39:51,266 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:39:51,267 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:51,267 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:51,269 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...647d3d34fa15bd7aa6a1437fc63c92be3cbc8b25'
2026-05-01 10:39:51,272 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:51,274 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 24 (Remove binder) 647d3d34fa15bd7aa6a1437fc63c92be3cbc8b25'
2026-05-01 10:39:51,281 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:39:51,284 [ scc.git] DEBUG .github/workflows/binder_badge.yml | 25 -------------------------
2026-05-01 10:39:51,284 [ scc.git] DEBUG .github/workflows/build.yml | 27 +++++++++++++++++++++++++++
2026-05-01 10:39:51,284 [ scc.git] DEBUG README.md | 15 ++++++---------
2026-05-01 10:39:51,284 [ scc.git] DEBUG binder/environment.yml | 6 ++++--
2026-05-01 10:39:51,284 [ scc.git] DEBUG 4 files changed, 37 insertions(+), 36 deletions(-)
2026-05-01 10:39:51,284 [ scc.git] DEBUG delete mode 100644 .github/workflows/binder_badge.yml
2026-05-01 10:39:51,284 [ scc.git] DEBUG create mode 100644 .github/workflows/build.yml
2026-05-01 10:39:51,475 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:39:51,476 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:39:51,514 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:51,514 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:51,516 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:51,553 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:39:51,556 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac6043490> has no local changes
2026-05-01 10:39:51,556 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-cellprofiler
Already up to date.
Merged PRs:
- PR 24 jburel 'Remove binder'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:39:51,562 [ scc.git] DEBUG [detached HEAD ebad577] merge master -Dorg -Ssuccess-only
2026-05-01 10:39:51,562 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:51,562 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:39:51,961 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-download/pulls HTTP/1.1" 200 2
2026-05-01 10:39:51,961 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:39:51,961 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/download
2026-05-01 10:39:51,962 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:51,962 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:51,964 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:39:51,966 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:39:51,966 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:39:51,968 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:39:51,974 [ scc.git] DEBUG Updating 4b1b912..a27d196
2026-05-01 10:39:51,974 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:39:51,974 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:51,974 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:51,976 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:39:52,011 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:52,011 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:52,013 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:52,047 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:39:52,050 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac604dd10> has no local changes
2026-05-01 10:39:52,050 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-download
Updating 4b1b912..a27d196
Previously merged:
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:39:52,055 [ scc.git] DEBUG [detached HEAD 75b21ca] merge master -Dorg -Ssuccess-only
2026-05-01 10:39:52,055 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:52,055 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:39:52,521 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/pulls HTTP/1.1" 200 None
2026-05-01 10:39:53,022 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/issues/17 HTTP/1.1" 200 None
2026-05-01 10:39:53,619 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/commits/d142504a021b0e7f274520f08eb24796f0663404?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:54,147 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/commits/d142504a021b0e7f274520f08eb24796f0663404/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:54,658 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/commits/d142504a021b0e7f274520f08eb24796f0663404?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:55,119 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/statuses/d142504a021b0e7f274520f08eb24796f0663404?per_page=1 HTTP/1.1" 200 2
2026-05-01 10:39:55,119 [ scc.repo] DEBUG - PR 17 will-moore 'Update inset workflow for OMERO.figure 7.2.0'
2026-05-01 10:39:55,625 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/issues/14 HTTP/1.1" 200 None
2026-05-01 10:39:56,134 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/issues/14/comments HTTP/1.1" 200 None
2026-05-01 10:39:56,691 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/commits/c2e5919f88d844ffea560784b7a800c655ff0743?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:57,197 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/commits/c2e5919f88d844ffea560784b7a800c655ff0743/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:39:57,670 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/commits/c2e5919f88d844ffea560784b7a800c655ff0743?page=1 HTTP/1.1" 200 None
2026-05-01 10:39:58,132 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-figure/statuses/c2e5919f88d844ffea560784b7a800c655ff0743?per_page=1 HTTP/1.1" 200 2
2026-05-01 10:39:58,132 [ scc.repo] DEBUG - PR 14 will-moore 'Table data by roi'
2026-05-01 10:39:58,133 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:39:58,133 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/figure
2026-05-01 10:39:58,133 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:58,133 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:58,135 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:39:58,137 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:39:58,138 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:39:58,140 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:39:58,143 [ scc.git] DEBUG Already up to date.
2026-05-01 10:39:58,143 [ scc.git] DEBUG Calling 'git fetch origin pull/14/head'
2026-05-01 10:39:58,618 [ scc.git] DEBUG From https://github.com/ome/omero-guide-figure
2026-05-01 10:39:58,618 [ scc.git] DEBUG * branch refs/pull/14/head -> FETCH_HEAD
2026-05-01 10:39:58,622 [ scc.git] DEBUG Calling 'git fetch origin pull/17/head'
2026-05-01 10:39:58,963 [ scc.git] DEBUG From https://github.com/ome/omero-guide-figure
2026-05-01 10:39:58,963 [ scc.git] DEBUG * branch refs/pull/17/head -> FETCH_HEAD
2026-05-01 10:39:58,967 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:39:58,967 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:58,967 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:58,969 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...c2e5919f88d844ffea560784b7a800c655ff0743'
2026-05-01 10:39:58,972 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:58,974 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 14 (Table data by roi) c2e5919f88d844ffea560784b7a800c655ff0743'
2026-05-01 10:39:58,981 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:39:58,984 [ scc.git] DEBUG docs/omero_figure_scripting.rst | 20 ++++++++++----------
2026-05-01 10:39:58,984 [ scc.git] DEBUG scripts/figure_table_data_shapes.js | 12 ++++++++----
2026-05-01 10:39:58,984 [ scc.git] DEBUG 2 files changed, 18 insertions(+), 14 deletions(-)
2026-05-01 10:39:59,162 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:39:59,163 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...d142504a021b0e7f274520f08eb24796f0663404'
2026-05-01 10:39:59,165 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:59,168 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 17 (Update inset workflow for OMERO.figure 7.2.0) d142504a021b0e7f274520f08eb24796f0663404'
2026-05-01 10:39:59,175 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:39:59,178 [ scc.git] DEBUG docs/omero_figure.rst | 15 ++++++++-------
2026-05-01 10:39:59,178 [ scc.git] DEBUG 1 file changed, 8 insertions(+), 7 deletions(-)
2026-05-01 10:39:59,592 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:39:59,592 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:39:59,630 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:39:59,630 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:39:59,632 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:39:59,669 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:39:59,672 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac602be90> has no local changes
2026-05-01 10:39:59,672 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-figure
Already up to date.
Merged PRs:
- PR 14 will-moore 'Table data by roi'
- PR 17 will-moore 'Update inset workflow for OMERO.figure 7.2.0'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:39:59,678 [ scc.git] DEBUG [detached HEAD ace69d1] merge master -Dorg -Ssuccess-only
2026-05-01 10:39:59,678 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:39:59,678 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:00,159 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/pulls HTTP/1.1" 200 None
2026-05-01 10:40:00,654 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/issues/35 HTTP/1.1" 200 None
2026-05-01 10:40:01,163 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/issues/35/comments HTTP/1.1" 200 None
2026-05-01 10:40:01,726 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/commits/5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:02,229 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/commits/5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:40:02,716 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/commits/5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:03,185 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/statuses/5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04?per_page=1 HTTP/1.1" 200 None
2026-05-01 10:40:03,849 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/commits/5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:04,338 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/commits/5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04/status HTTP/1.1" 200 None
2026-05-01 10:40:04,339 [ scc.repo] DEBUG - PR 35 pwalczysko 'livingobjects'
2026-05-01 10:40:04,861 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/issues/24 HTTP/1.1" 200 None
2026-05-01 10:40:05,395 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fiji/issues/24/comments HTTP/1.1" 200 None
2026-05-01 10:40:05,395 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:05,395 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/fiji
2026-05-01 10:40:05,396 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:05,396 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:05,398 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:05,401 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:05,401 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:05,403 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:05,406 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:05,406 [ scc.git] DEBUG Calling 'git fetch origin pull/35/head'
2026-05-01 10:40:05,837 [ scc.git] DEBUG From https://github.com/ome/omero-guide-fiji
2026-05-01 10:40:05,837 [ scc.git] DEBUG * branch refs/pull/35/head -> FETCH_HEAD
2026-05-01 10:40:05,840 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:05,840 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:05,840 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:05,843 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04'
2026-05-01 10:40:05,846 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:05,848 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 35 (livingobjects) 5cd76b1e65bf2e0b0a0c11b6eeffc6c036c23a04'
2026-05-01 10:40:05,857 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:40:05,861 [ scc.git] DEBUG .github/workflows/repo2docker.yml | 23 -----------------------
2026-05-01 10:40:05,861 [ scc.git] DEBUG README.md | 19 +------------------
2026-05-01 10:40:05,861 [ scc.git] DEBUG docs/headless_notebook.rst | 2 +-
2026-05-01 10:40:05,861 [ scc.git] DEBUG docs/view_mobie_zarr.rst | 4 ++--
2026-05-01 10:40:05,861 [ scc.git] DEBUG notebooks/imagej_python_zarr.ipynb | 2 +-
2026-05-01 10:40:05,861 [ scc.git] DEBUG scripts/groovy/mobie_ome_zarr.groovy | 2 +-
2026-05-01 10:40:05,861 [ scc.git] DEBUG 6 files changed, 6 insertions(+), 46 deletions(-)
2026-05-01 10:40:05,861 [ scc.git] DEBUG delete mode 100644 .github/workflows/repo2docker.yml
2026-05-01 10:40:06,060 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:06,060 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:06,099 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:06,100 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:06,102 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:06,137 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:06,141 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac60a7a10> has no local changes
2026-05-01 10:40:06,141 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-fiji
Excluded PRs:
- PR 24 oeway 'Disable FilamentDetector in Fiji' (user: oeway)
Already up to date.
Merged PRs:
- PR 35 pwalczysko 'livingobjects'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:06,146 [ scc.git] DEBUG [detached HEAD 6aa72ea] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:06,147 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:06,147 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:06,521 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-fpbioimage/pulls HTTP/1.1" 200 2
2026-05-01 10:40:06,521 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:06,521 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/fpbioimage
2026-05-01 10:40:06,521 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:06,521 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:06,524 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:06,526 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:06,526 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:06,529 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:06,531 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:06,532 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:06,532 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:06,532 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:06,534 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:06,570 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:06,571 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:06,572 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:06,608 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:06,611 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac608fbd0> has no local changes
2026-05-01 10:40:06,611 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-fpbioimage
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:06,616 [ scc.git] DEBUG [detached HEAD 3e35cf3] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:06,616 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:06,616 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:06,988 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-ilastik/pulls HTTP/1.1" 200 2
2026-05-01 10:40:06,989 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:06,989 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/ilastik
2026-05-01 10:40:06,989 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:06,989 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:06,991 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:06,993 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:06,993 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:06,996 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:07,006 [ scc.git] DEBUG Updating f7b4afb..c0bbd42
2026-05-01 10:40:07,702 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-ilastik/pulls/41 HTTP/1.1" 200 None
2026-05-01 10:40:07,703 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:07,704 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:07,704 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:07,706 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:07,743 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:07,743 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:07,745 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:07,781 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:07,785 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac46ba550> has no local changes
2026-05-01 10:40:07,785 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-ilastik
Updating f7b4afb..c0bbd42
Previously merged:
- PR 41 pwalczysko 'livingobjects'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:07,792 [ scc.git] DEBUG [detached HEAD e1b1a0f] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:07,792 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:07,792 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:08,163 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-introduction/pulls HTTP/1.1" 200 2
2026-05-01 10:40:08,163 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:08,163 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/introduction
2026-05-01 10:40:08,163 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:08,163 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:08,166 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:08,168 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:08,168 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:08,171 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:08,173 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:08,174 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:08,174 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:08,174 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:08,176 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:08,212 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:08,212 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:08,214 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:08,250 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:08,252 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac6098a10> has no local changes
2026-05-01 10:40:08,252 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-introduction
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:08,258 [ scc.git] DEBUG [detached HEAD bd1832b] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:08,258 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:08,258 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:08,622 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-iviewer/pulls HTTP/1.1" 200 2
2026-05-01 10:40:08,623 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:08,623 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/iviewer
2026-05-01 10:40:08,623 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:08,623 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:08,625 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:08,627 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:08,627 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:08,630 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:08,632 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:08,632 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:08,632 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:08,632 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:08,634 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:08,670 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:08,670 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:08,672 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:08,707 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:08,710 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac60ae350> has no local changes
2026-05-01 10:40:08,710 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-iviewer
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:08,715 [ scc.git] DEBUG [detached HEAD 5b70293] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:08,715 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:08,715 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:09,205 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/pulls HTTP/1.1" 200 None
2026-05-01 10:40:09,715 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/issues/3 HTTP/1.1" 200 None
2026-05-01 10:40:10,234 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/issues/3/comments HTTP/1.1" 200 None
2026-05-01 10:40:10,799 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/commits/31294bfa7f63d9dbaa984a386e6db9a945cc0fa5?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:11,305 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/commits/31294bfa7f63d9dbaa984a386e6db9a945cc0fa5/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:40:11,814 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/commits/31294bfa7f63d9dbaa984a386e6db9a945cc0fa5?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:12,273 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-java/statuses/31294bfa7f63d9dbaa984a386e6db9a945cc0fa5?per_page=1 HTTP/1.1" 200 2
2026-05-01 10:40:12,274 [ scc.repo] DEBUG - PR 3 jburel 'fix build failure on rtd'
2026-05-01 10:40:12,274 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:12,274 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/java
2026-05-01 10:40:12,274 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:12,274 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:12,276 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:12,278 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:12,279 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:12,281 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:12,284 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:12,284 [ scc.git] DEBUG Calling 'git fetch origin pull/3/head'
2026-05-01 10:40:12,644 [ scc.git] DEBUG From https://github.com/ome/omero-guide-java
2026-05-01 10:40:12,644 [ scc.git] DEBUG * branch refs/pull/3/head -> FETCH_HEAD
2026-05-01 10:40:12,648 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:12,648 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:12,648 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:12,650 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...31294bfa7f63d9dbaa984a386e6db9a945cc0fa5'
2026-05-01 10:40:12,652 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:12,654 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 3 (fix build failure on rtd) 31294bfa7f63d9dbaa984a386e6db9a945cc0fa5'
2026-05-01 10:40:12,661 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:40:12,663 [ scc.git] DEBUG .readthedocs.yaml | 8 ++++----
2026-05-01 10:40:12,663 [ scc.git] DEBUG 1 file changed, 4 insertions(+), 4 deletions(-)
2026-05-01 10:40:12,864 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:12,864 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:12,900 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:12,900 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:12,902 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:12,939 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:12,942 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac46cd750> has no local changes
2026-05-01 10:40:12,942 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-java
Already up to date.
Merged PRs:
- PR 3 jburel 'fix build failure on rtd'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:12,947 [ scc.git] DEBUG [detached HEAD 450272b] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:12,947 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:12,947 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:13,332 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-matlab/pulls HTTP/1.1" 200 2
2026-05-01 10:40:13,333 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:13,333 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/matlab
2026-05-01 10:40:13,333 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:13,333 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:13,335 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:13,337 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:13,337 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:13,340 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:13,342 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:13,342 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:13,342 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:13,342 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:13,344 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:13,380 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:13,380 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:13,382 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:13,417 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:13,420 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac46c0050> has no local changes
2026-05-01 10:40:13,420 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-matlab
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:13,425 [ scc.git] DEBUG [detached HEAD d98f6c7] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:13,425 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:13,425 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:14,029 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/pulls HTTP/1.1" 200 None
2026-05-01 10:40:14,522 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/issues/4 HTTP/1.1" 200 None
2026-05-01 10:40:15,017 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/issues/4/comments HTTP/1.1" 200 None
2026-05-01 10:40:15,572 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/commits/4b6e2511fe820a323b2311e2b39910b6b79fcf6a?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:16,088 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/commits/4b6e2511fe820a323b2311e2b39910b6b79fcf6a/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:40:16,573 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/commits/4b6e2511fe820a323b2311e2b39910b6b79fcf6a?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:17,022 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-mde/statuses/4b6e2511fe820a323b2311e2b39910b6b79fcf6a?per_page=1 HTTP/1.1" 200 2
2026-05-01 10:40:17,023 [ scc.repo] DEBUG - PR 4 pwalczysko 'Remove relative reference when it does not work'
2026-05-01 10:40:17,023 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:17,023 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/mde
2026-05-01 10:40:17,023 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:17,023 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:17,026 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:17,028 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:17,028 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:17,031 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:17,033 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:17,034 [ scc.git] DEBUG Calling 'git fetch origin pull/4/head'
2026-05-01 10:40:17,445 [ scc.git] DEBUG From https://github.com/ome/omero-guide-mde
2026-05-01 10:40:17,445 [ scc.git] DEBUG * branch refs/pull/4/head -> FETCH_HEAD
2026-05-01 10:40:17,450 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:17,450 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:17,450 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:17,452 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...4b6e2511fe820a323b2311e2b39910b6b79fcf6a'
2026-05-01 10:40:17,455 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:17,457 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 4 (Remove relative reference when it does not work) 4b6e2511fe820a323b2311e2b39910b6b79fcf6a'
2026-05-01 10:40:17,463 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:40:17,466 [ scc.git] DEBUG docs/mde_customizeObjects.rst | 4 ++--
2026-05-01 10:40:17,466 [ scc.git] DEBUG docs/mde_customizeView.rst | 4 ++--
2026-05-01 10:40:17,466 [ scc.git] DEBUG 2 files changed, 4 insertions(+), 4 deletions(-)
2026-05-01 10:40:17,650 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:17,651 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:17,688 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:17,688 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:17,690 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:17,727 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:17,729 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac60de410> has no local changes
2026-05-01 10:40:17,730 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-mde
Already up to date.
Merged PRs:
- PR 4 pwalczysko 'Remove relative reference when it does not work'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:17,735 [ scc.git] DEBUG [detached HEAD 98336ba] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:17,735 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:17,735 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:18,113 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-orbit/pulls HTTP/1.1" 200 2
2026-05-01 10:40:18,113 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:18,113 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/orbit
2026-05-01 10:40:18,114 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:18,114 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:18,116 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:18,118 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:18,118 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:18,120 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:18,123 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:18,123 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:18,123 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:18,123 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:18,125 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:18,160 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:18,160 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:18,162 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:18,197 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:18,200 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac471fc90> has no local changes
2026-05-01 10:40:18,200 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-orbit
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:18,205 [ scc.git] DEBUG [detached HEAD 87f718d] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:18,205 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:18,205 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:18,567 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-parade/pulls HTTP/1.1" 200 2
2026-05-01 10:40:18,568 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:18,568 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/parade
2026-05-01 10:40:18,568 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:18,568 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:18,570 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:18,572 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:18,572 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:18,575 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:18,578 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:18,578 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:18,578 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:18,578 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:18,580 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:18,616 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:18,616 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:18,618 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:18,653 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:18,656 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac4722e10> has no local changes
2026-05-01 10:40:18,656 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-parade
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:18,661 [ scc.git] DEBUG [detached HEAD f372b2f] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:18,661 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:18,661 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:19,032 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-python/pulls HTTP/1.1" 200 2
2026-05-01 10:40:19,032 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:19,032 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/python
2026-05-01 10:40:19,032 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:19,033 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:19,035 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:19,037 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:19,037 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:19,039 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:19,042 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:19,042 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:19,042 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:19,042 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:19,044 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:19,079 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:19,079 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:19,081 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:19,115 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:19,118 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac60f0710> has no local changes
2026-05-01 10:40:19,118 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-python
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:19,124 [ scc.git] DEBUG [detached HEAD 123f956] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:19,124 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:19,124 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:19,493 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-qupath/pulls HTTP/1.1" 200 2
2026-05-01 10:40:19,494 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:19,494 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/qupath
2026-05-01 10:40:19,494 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:19,494 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:19,496 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:19,498 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:19,498 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:19,501 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:19,503 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:19,504 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:19,504 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:19,504 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:19,506 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:19,543 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:19,543 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:19,545 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:19,580 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:19,583 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac4710c50> has no local changes
2026-05-01 10:40:19,583 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-qupath
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:19,588 [ scc.git] DEBUG [detached HEAD 878f802] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:19,588 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:19,589 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:20,032 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/pulls HTTP/1.1" 200 None
2026-05-01 10:40:20,537 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/issues/11 HTTP/1.1" 200 None
2026-05-01 10:40:21,058 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/issues/11/comments HTTP/1.1" 200 None
2026-05-01 10:40:21,595 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/commits/990828ddac8bc276820c2fa5952182f56b0ab241?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:22,105 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/commits/990828ddac8bc276820c2fa5952182f56b0ab241/check-suites?app_id=15368&per_page=1 HTTP/1.1" 200 None
2026-05-01 10:40:22,573 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/commits/990828ddac8bc276820c2fa5952182f56b0ab241?page=1 HTTP/1.1" 200 None
2026-05-01 10:40:23,034 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-r/statuses/990828ddac8bc276820c2fa5952182f56b0ab241?per_page=1 HTTP/1.1" 200 2
2026-05-01 10:40:23,034 [ scc.repo] DEBUG - PR 11 jburel 'fix build failure on rtd'
2026-05-01 10:40:23,034 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:23,034 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/r
2026-05-01 10:40:23,034 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:23,035 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:23,037 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:23,039 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:23,039 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:23,042 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:23,045 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:23,045 [ scc.git] DEBUG Calling 'git fetch origin pull/11/head'
2026-05-01 10:40:23,396 [ scc.git] DEBUG From https://github.com/ome/omero-guide-r
2026-05-01 10:40:23,396 [ scc.git] DEBUG * branch refs/pull/11/head -> FETCH_HEAD
2026-05-01 10:40:23,401 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:23,401 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:23,401 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:23,403 [ scc.git] DEBUG Calling 'git diff --name-only HEAD...990828ddac8bc276820c2fa5952182f56b0ab241'
2026-05-01 10:40:23,405 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:23,408 [ scc.git] DEBUG Calling 'git merge --no-ff -m merge master -Dorg -Ssuccess-only: PR 11 (fix build failure on rtd) 990828ddac8bc276820c2fa5952182f56b0ab241'
2026-05-01 10:40:23,414 [ scc.git] DEBUG Merge made by the 'ort' strategy.
2026-05-01 10:40:23,417 [ scc.git] DEBUG .readthedocs.yaml | 8 ++++----
2026-05-01 10:40:23,417 [ scc.git] DEBUG 1 file changed, 4 insertions(+), 4 deletions(-)
2026-05-01 10:40:23,607 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:23,607 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:23,646 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:23,646 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:23,648 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:23,684 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:23,687 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac47a3c50> has no local changes
2026-05-01 10:40:23,687 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-r
Already up to date.
Merged PRs:
- PR 11 jburel 'fix build failure on rtd'
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:23,692 [ scc.git] DEBUG [detached HEAD 9fbc273] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:23,693 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:23,693 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:24,066 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-scripts/pulls HTTP/1.1" 200 2
2026-05-01 10:40:24,066 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:24,066 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/scripts
2026-05-01 10:40:24,066 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,066 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,069 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:24,071 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:24,071 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:24,073 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:24,076 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:24,076 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:24,076 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,076 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,078 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:24,113 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,113 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,115 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:24,149 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:24,152 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac47156d0> has no local changes
2026-05-01 10:40:24,152 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-scripts
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:24,158 [ scc.git] DEBUG [detached HEAD 9c8a708] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:24,158 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:24,158 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:24,518 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-trackmate/pulls HTTP/1.1" 200 2
2026-05-01 10:40:24,518 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:24,518 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/trackmate
2026-05-01 10:40:24,518 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,518 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,521 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:24,523 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:24,523 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:24,526 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:24,529 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:24,529 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:24,529 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,529 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,531 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:24,571 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,571 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,574 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:24,611 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:24,614 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac473b610> has no local changes
2026-05-01 10:40:24,614 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-trackmate
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:24,620 [ scc.git] DEBUG [detached HEAD 8fdd117] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:24,621 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:24,621 [ scc.repo] DEBUG ## PRs found:
2026-05-01 10:40:24,984 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guide-upload/pulls HTTP/1.1" 200 2
2026-05-01 10:40:24,985 [ scc.repo] DEBUG ## Branches found:
2026-05-01 10:40:24,985 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/upload
2026-05-01 10:40:24,985 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,985 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,988 [ scc.git] DEBUG Calling 'git show-ref --verify --quiet refs/remotes/origin/master'
2026-05-01 10:40:24,990 [ scc.git] DEBUG ## Merging base to ensure closed PRs are included.
2026-05-01 10:40:24,990 [ scc.git] DEBUG Calling 'git log --oneline --first-parent HEAD..origin/master'
2026-05-01 10:40:24,993 [ scc.git] DEBUG Calling 'git merge --ff-only origin/master'
2026-05-01 10:40:24,996 [ scc.git] DEBUG Already up to date.
2026-05-01 10:40:24,996 [ scc.git] DEBUG ## Unique users: []
2026-05-01 10:40:24,996 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:24,996 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:24,998 [ scc.git] DEBUG Calling 'git submodule update'
2026-05-01 10:40:25,034 [ scc.git] DEBUG Get sha1 of %s
2026-05-01 10:40:25,035 [ scc.git] DEBUG Calling 'git rev-parse HEAD'
2026-05-01 10:40:25,036 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:25,071 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:25,074 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac4790490> has no local changes
2026-05-01 10:40:25,074 [ scc.git] DEBUG Calling 'git commit --allow-empty -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guide-upload
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:25,080 [ scc.git] DEBUG [detached HEAD 1aa11db] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:25,080 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:25,080 [ scc.git] DEBUG Calling 'git submodule --quiet foreach echo $path'
2026-05-01 10:40:25,142 [ scc.config] DEBUG Found submodule.cellprofiler.url
2026-05-01 10:40:25,426 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:25,432 [ scc.config] DEBUG Found submodule.download.url
2026-05-01 10:40:25,859 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:25,866 [ scc.config] DEBUG Found submodule.figure.url
2026-05-01 10:40:26,302 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:26,308 [ scc.config] DEBUG Found submodule.fiji.url
2026-05-01 10:40:26,742 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:26,749 [ scc.config] DEBUG Found submodule.fpbioimage.url
2026-05-01 10:40:27,181 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:27,188 [ scc.config] DEBUG Found submodule.ilastik.url
2026-05-01 10:40:27,617 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:27,623 [ scc.config] DEBUG Found submodule.introduction.url
2026-05-01 10:40:28,045 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:28,052 [ scc.config] DEBUG Found submodule.iviewer.url
2026-05-01 10:40:28,490 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:28,496 [ scc.config] DEBUG Found submodule.java.url
2026-05-01 10:40:28,938 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:28,944 [ scc.config] DEBUG Found submodule.matlab.url
2026-05-01 10:40:29,375 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:29,382 [ scc.config] DEBUG Found submodule.mde.url
2026-05-01 10:40:29,799 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:29,806 [ scc.config] DEBUG Found submodule.orbit.url
2026-05-01 10:40:30,228 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:30,235 [ scc.config] DEBUG Found submodule.parade.url
2026-05-01 10:40:30,656 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:30,663 [ scc.config] DEBUG Found submodule.python.url
2026-05-01 10:40:31,098 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:31,104 [ scc.config] DEBUG Found submodule.qupath.url
2026-05-01 10:40:31,523 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:31,530 [ scc.config] DEBUG Found submodule.r.url
2026-05-01 10:40:31,955 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:31,961 [ scc.config] DEBUG Found submodule.scripts.url
2026-05-01 10:40:32,399 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:32,407 [ scc.config] DEBUG Found submodule.trackmate.url
2026-05-01 10:40:32,860 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:32,867 [ scc.config] DEBUG Found submodule.upload.url
2026-05-01 10:40:33,291 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2026-05-01 10:40:33,296 [ scc.git] DEBUG Calling 'git status --porcelain'
2026-05-01 10:40:33,356 [ scc.git] DEBUG <scc.git.GitRepository object at 0x7f9ac60b59d0> has local changes
2026-05-01 10:40:33,357 [ scc.git] DEBUG Calling 'git commit -a -n -m merge master -Dorg -Ssuccess-only
Repository: ome/omero-guides
Excluded PRs:
- PR 23 jburel 'Remove submodules' (exclude comment)
Already up to date.
Merged PRs:
- PR 303 dependabot[bot] 'Bump fiji from `218b05a` to `86f00e3`'
- PR 304 dependabot[bot] 'Bump python from `5ba303a` to `17536a9`'
- PR 305 dependabot[bot] 'Bump parade from `0875cf1` to `908b335`'
Repository: ome/omero-guide-cellprofiler
Already up to date.
Merged PRs:
- PR 24 jburel 'Remove binder'
Repository: ome/omero-guide-download
Updating 4b1b912..a27d196
Previously merged:
Repository: ome/omero-guide-figure
Already up to date.
Merged PRs:
- PR 14 will-moore 'Table data by roi'
- PR 17 will-moore 'Update inset workflow for OMERO.figure 7.2.0'
Repository: ome/omero-guide-fiji
Excluded PRs:
- PR 24 oeway 'Disable FilamentDetector in Fiji' (user: oeway)
Already up to date.
Merged PRs:
- PR 35 pwalczysko 'livingobjects'
Repository: ome/omero-guide-fpbioimage
Already up to date.
Repository: ome/omero-guide-ilastik
Updating f7b4afb..c0bbd42
Previously merged:
- PR 41 pwalczysko 'livingobjects'
Repository: ome/omero-guide-introduction
Already up to date.
Repository: ome/omero-guide-iviewer
Already up to date.
Repository: ome/omero-guide-java
Already up to date.
Merged PRs:
- PR 3 jburel 'fix build failure on rtd'
Repository: ome/omero-guide-matlab
Already up to date.
Repository: ome/omero-guide-mde
Already up to date.
Merged PRs:
- PR 4 pwalczysko 'Remove relative reference when it does not work'
Repository: ome/omero-guide-orbit
Already up to date.
Repository: ome/omero-guide-parade
Already up to date.
Repository: ome/omero-guide-python
Already up to date.
Repository: ome/omero-guide-qupath
Already up to date.
Repository: ome/omero-guide-r
Already up to date.
Merged PRs:
- PR 11 jburel 'fix build failure on rtd'
Repository: ome/omero-guide-scripts
Already up to date.
Repository: ome/omero-guide-trackmate
Already up to date.
Repository: ome/omero-guide-upload
Already up to date.
Generated by OMERO-guides-push#117 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-guides-push/117/)'
2026-05-01 10:40:33,367 [ scc.git] DEBUG [detached HEAD a7d30b6] merge master -Dorg -Ssuccess-only
2026-05-01 10:40:33,367 [ scc.git] DEBUG 20 files changed, 38 insertions(+), 38 deletions(-)
2026-05-01 10:40:33,367 [ scc.merge] INFO Repository: ome/omero-guides
2026-05-01 10:40:33,367 [ scc.merge] INFO Excluded PRs:
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 23 jburel 'Remove submodules' (exclude comment)
2026-05-01 10:40:33,367 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 303 dependabot[bot] 'Bump fiji from `218b05a` to `86f00e3`'
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 304 dependabot[bot] 'Bump python from `5ba303a` to `17536a9`'
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 305 dependabot[bot] 'Bump parade from `0875cf1` to `908b335`'
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Repository: ome/omero-guide-cellprofiler
2026-05-01 10:40:33,367 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 24 jburel 'Remove binder'
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Repository: ome/omero-guide-download
2026-05-01 10:40:33,367 [ scc.merge] INFO Updating 4b1b912..a27d196
2026-05-01 10:40:33,367 [ scc.merge] INFO Previously merged:
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Repository: ome/omero-guide-figure
2026-05-01 10:40:33,367 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 14 will-moore 'Table data by roi'
2026-05-01 10:40:33,367 [ scc.merge] INFO - PR 17 will-moore 'Update inset workflow for OMERO.figure 7.2.0'
2026-05-01 10:40:33,367 [ scc.merge] INFO
2026-05-01 10:40:33,367 [ scc.merge] INFO Repository: ome/omero-guide-fiji
2026-05-01 10:40:33,367 [ scc.merge] INFO Excluded PRs:
2026-05-01 10:40:33,368 [ scc.merge] INFO - PR 24 oeway 'Disable FilamentDetector in Fiji' (user: oeway)
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,368 [ scc.merge] INFO - PR 35 pwalczysko 'livingobjects'
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-fpbioimage
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-ilastik
2026-05-01 10:40:33,368 [ scc.merge] INFO Updating f7b4afb..c0bbd42
2026-05-01 10:40:33,368 [ scc.merge] INFO Previously merged:
2026-05-01 10:40:33,368 [ scc.merge] INFO - PR 41 pwalczysko 'livingobjects'
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-introduction
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-iviewer
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-java
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,368 [ scc.merge] INFO - PR 3 jburel 'fix build failure on rtd'
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-matlab
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2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-mde
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,368 [ scc.merge] INFO - PR 4 pwalczysko 'Remove relative reference when it does not work'
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-orbit
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-parade
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO
2026-05-01 10:40:33,368 [ scc.merge] INFO Repository: ome/omero-guide-python
2026-05-01 10:40:33,368 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO Repository: ome/omero-guide-qupath
2026-05-01 10:40:33,369 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO Repository: ome/omero-guide-r
2026-05-01 10:40:33,369 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO Merged PRs:
2026-05-01 10:40:33,369 [ scc.merge] INFO - PR 11 jburel 'fix build failure on rtd'
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO Repository: ome/omero-guide-scripts
2026-05-01 10:40:33,369 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,369 [ scc.merge] INFO
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2026-05-01 10:40:33,369 [ scc.merge] INFO Repository: ome/omero-guide-trackmate
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2026-05-01 10:40:33,369 [ scc.merge] INFO
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2026-05-01 10:40:33,369 [ scc.merge] INFO Repository: ome/omero-guide-upload
2026-05-01 10:40:33,369 [ scc.merge] INFO Already up to date.
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] INFO
2026-05-01 10:40:33,369 [ scc.merge] DEBUG Cleaning remote branches created for merging
2026-05-01 10:40:33,369 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,371 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/cellprofiler
2026-05-01 10:40:33,371 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,373 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,373 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/download
2026-05-01 10:40:33,373 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,375 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,375 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/figure
2026-05-01 10:40:33,375 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,377 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,377 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/fiji
2026-05-01 10:40:33,377 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,379 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,379 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/fpbioimage
2026-05-01 10:40:33,379 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,381 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,382 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/ilastik
2026-05-01 10:40:33,382 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,383 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,384 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/introduction
2026-05-01 10:40:33,384 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,385 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,386 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/iviewer
2026-05-01 10:40:33,386 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,387 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,388 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/java
2026-05-01 10:40:33,388 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,389 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,390 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/matlab
2026-05-01 10:40:33,390 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,391 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,392 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/mde
2026-05-01 10:40:33,392 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,393 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,394 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/orbit
2026-05-01 10:40:33,394 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,395 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,396 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/parade
2026-05-01 10:40:33,396 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,397 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,398 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/python
2026-05-01 10:40:33,398 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,399 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,400 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/qupath
2026-05-01 10:40:33,400 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,401 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,402 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/r
2026-05-01 10:40:33,402 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,403 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,404 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/scripts
2026-05-01 10:40:33,404 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,405 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,406 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/trackmate
2026-05-01 10:40:33,406 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,407 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
2026-05-01 10:40:33,407 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push/upload
2026-05-01 10:40:33,408 [ scc.git] DEBUG Calling 'git remote'
2026-05-01 10:40:33,409 [ scc.git] DEBUG cd /home/omero/workspace/OMERO-guides-push
Update component versions
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python3.11: can't open file '/home/omero/workspace/OMERO-guides-push/download/setup.py': [Errno 2] No such file or directory
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python3.11: can't open file '/home/omero/workspace/OMERO-guides-push/parade/setup.py': [Errno 2] No such file or directory
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python3.11: can't open file '/home/omero/workspace/OMERO-guides-push/r/setup.py': [Errno 2] No such file or directory
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2026-05-01 10:42:07,083 [ scc.push] INFO Merged branch pushed to https://github.com/snoopycrimecop/omero-guides/tree/merge_ci
[Pipeline] archiveArtifacts
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[Pipeline] }
[Pipeline] // node
[Pipeline] End of Pipeline
Finished: SUCCESS
