Started by upstream project "Trigger" build number 22 originally caused by: Started by timer Running as SYSTEM Building remotely on testintegration (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/BIOFORMATS-push The recommended git tool is: NONE No credentials specified > git rev-parse --resolve-git-dir /home/omero/workspace/BIOFORMATS-push/bio-formats-build/.git # timeout=10 Fetching changes from the remote Git repository > git config remote.origin.url https://github.com/ome/bio-formats-build # timeout=10 Cleaning workspace > git rev-parse --verify HEAD # timeout=10 Resetting working tree > git reset --hard # timeout=10 > git clean -ffdx # timeout=10 > git submodule foreach --recursive git reset --hard # timeout=10 > git submodule foreach --recursive git clean -fdx # timeout=10 Fetching upstream changes from https://github.com/ome/bio-formats-build > git --version # timeout=10 > git --version # 'git version 2.52.0' > git fetch --tags --force --progress -- https://github.com/ome/bio-formats-build +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse origin/master^{commit} # timeout=10 Checking out Revision 9e8c9ff560c2beea8ec33cc8a45a192d8a2f8fe0 (origin/master) > git config core.sparsecheckout # timeout=10 > git checkout -f 9e8c9ff560c2beea8ec33cc8a45a192d8a2f8fe0 # timeout=10 Commit message: "Merge pull request #731 from pwalczysko/fix-build-no-ant" > git rev-list --no-walk 9e8c9ff560c2beea8ec33cc8a45a192d8a2f8fe0 # timeout=10 > git remote # timeout=10 > git submodule init # timeout=10 > git submodule sync # timeout=10 > git config --get remote.origin.url # timeout=10 > git submodule init # timeout=10 > git config -f .gitmodules --get-regexp ^submodule\.(.+)\.url # timeout=10 > git config --get submodule.ome-common-java.url # timeout=10 > git config -f .gitmodules --get submodule.ome-common-java.path # timeout=10 > git config --get submodule.ome-model.url # timeout=10 > git config -f .gitmodules --get submodule.ome-model.path # timeout=10 > git config --get submodule.ome-poi.url # timeout=10 > git config -f .gitmodules --get submodule.ome-poi.path # timeout=10 > git config --get submodule.ome-mdbtools.url # timeout=10 > git config -f .gitmodules --get submodule.ome-mdbtools.path # timeout=10 > git config --get submodule.ome-jai.url # timeout=10 > git config -f .gitmodules --get submodule.ome-jai.path # timeout=10 > git config --get submodule.ome-codecs.url # timeout=10 > git config -f .gitmodules --get submodule.ome-codecs.path # timeout=10 > git config --get submodule.ome-metakit.url # timeout=10 > git config -f .gitmodules --get submodule.ome-metakit.path # timeout=10 > git config --get submodule.ome-stubs.url # timeout=10 > git config -f .gitmodules --get submodule.ome-stubs.path # timeout=10 > git config --get submodule.bioformats.url # timeout=10 > git config -f .gitmodules --get submodule.bioformats.path # timeout=10 > git config --get submodule.bio-formats-documentation.url # timeout=10 > git config -f .gitmodules --get submodule.bio-formats-documentation.path # timeout=10 > git config --get submodule.bio-formats-examples.url # timeout=10 > git config -f .gitmodules --get submodule.bio-formats-examples.path # timeout=10 > git config --get submodule.ZarrReader.url # timeout=10 > git config -f .gitmodules --get submodule.ZarrReader.path # timeout=10 > git submodule update --init --recursive --remote ome-common-java # timeout=10 > git submodule update --init --recursive --remote ome-model # timeout=10 > git submodule update --init --recursive --remote ome-poi # timeout=10 > git submodule update --init --recursive --remote ome-mdbtools # timeout=10 > git submodule update --init --recursive --remote ome-jai # timeout=10 > git submodule update --init --recursive --remote ome-codecs # timeout=10 > git submodule update --init --recursive --remote ome-metakit # timeout=10 > git submodule update --init --recursive --remote ome-stubs # timeout=10 > git submodule update --init --recursive --remote bioformats # timeout=10 > git submodule update --init --recursive --remote bio-formats-documentation # timeout=10 > git submodule update --init --recursive --remote bio-formats-examples # timeout=10 > git submodule update --init --recursive --remote ZarrReader # timeout=10 [BIOFORMATS-push] $ /bin/bash -xe /tmp/jenkins764457130260519629.sh + python3.11 -mvenv venv + source /home/omero/workspace/BIOFORMATS-push/venv/bin/activate ++ deactivate nondestructive ++ '[' -n '' ']' ++ '[' -n '' ']' ++ hash -r ++ '[' -n '' ']' ++ unset VIRTUAL_ENV ++ unset VIRTUAL_ENV_PROMPT ++ '[' '!' nondestructive = nondestructive ']' ++ VIRTUAL_ENV=/home/omero/workspace/BIOFORMATS-push/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/BIOFORMATS-push/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 + pip install -U pip Requirement already satisfied: pip in ./venv/lib64/python3.11/site-packages (26.1.2) + pip install -U scc Requirement already satisfied: scc in ./venv/lib64/python3.11/site-packages (0.20.0) Requirement already satisfied: PyGithub>=1.54 in ./venv/lib64/python3.11/site-packages (from scc) (2.9.1) Requirement already satisfied: PyYAML>=5.1 in ./venv/lib64/python3.11/site-packages (from scc) (6.0.3) Requirement already satisfied: future in ./venv/lib64/python3.11/site-packages (from scc) (1.0.0) Requirement already satisfied: ruamel.yaml in ./venv/lib64/python3.11/site-packages (from scc) (0.19.1) Requirement already satisfied: ruamel.yaml.jinja2 in ./venv/lib64/python3.11/site-packages (from scc) (0.2.7) Requirement already satisfied: six in ./venv/lib64/python3.11/site-packages (from scc) (1.17.0) Requirement already satisfied: urllib3<2 in ./venv/lib64/python3.11/site-packages (from scc) (1.26.20) Requirement already satisfied: yaclifw<0.3,>=0.2.0 in ./venv/lib64/python3.11/site-packages (from scc) (0.2.0) Requirement already satisfied: pynacl>=1.4.0 in ./venv/lib64/python3.11/site-packages (from PyGithub>=1.54->scc) (1.6.2) Requirement already satisfied: requests>=2.14.0 in ./venv/lib64/python3.11/site-packages (from PyGithub>=1.54->scc) (2.34.2) Requirement already satisfied: pyjwt>=2.4.0 in ./venv/lib64/python3.11/site-packages (from pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc) (2.13.0) Requirement already satisfied: typing-extensions>=4.5.0 in ./venv/lib64/python3.11/site-packages (from PyGithub>=1.54->scc) (4.16.0) Requirement already satisfied: cryptography>=3.4.0 in ./venv/lib64/python3.11/site-packages (from pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc) (49.0.0) Requirement already satisfied: cffi>=2.0.0 in ./venv/lib64/python3.11/site-packages (from cryptography>=3.4.0->pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc) (2.0.0) Requirement already satisfied: pycparser in ./venv/lib64/python3.11/site-packages (from cffi>=2.0.0->cryptography>=3.4.0->pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc) (3.0) Requirement already satisfied: charset_normalizer<4,>=2 in ./venv/lib64/python3.11/site-packages (from requests>=2.14.0->PyGithub>=1.54->scc) (3.4.7) Requirement already satisfied: idna<4,>=2.5 in ./venv/lib64/python3.11/site-packages (from requests>=2.14.0->PyGithub>=1.54->scc) (3.18) Requirement already satisfied: certifi>=2023.5.7 in ./venv/lib64/python3.11/site-packages (from requests>=2.14.0->PyGithub>=1.54->scc) (2026.6.17) + PATH=/home/omero/workspace/BIOFORMATS-push/bio-formats-build/scripts:/home/omero/workspace/BIOFORMATS-push/venv/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin + MERGE_OPTIONS='--no-ask --reset --comment -S success-only' + cd bio-formats-build + echo 'Merge base repository (no submodule updates)' Merge base repository (no submodule updates) + scc merge --no-ask --reset --comment -S success-only --shallow master 2026-07-20 00:01:14,695 [ scc.merge] INFO Merging Pull Request(s) based on master 2026-07-20 00:01:14,695 [ scc.merge] INFO Including Pull Request(s) opened by any public member of the organization 2026-07-20 00:01:14,696 [ scc.merge] INFO Including Pull Request(s) labelled as include or dependencies 2026-07-20 00:01:14,696 [ scc.merge] INFO Excluding Pull Request(s) staged as draft 2026-07-20 00:01:14,696 [ scc.merge] INFO Excluding Pull Request(s) labelled as exclude or breaking 2026-07-20 00:01:14,696 [ scc.merge] INFO Excluding Pull Request(s) without successful status 2026-07-20 00:01:19,687 [ scc.merge] INFO Repository: ome/bio-formats-build 2026-07-20 00:01:19,687 [ scc.merge] INFO Already up to date. 2026-07-20 00:01:19,687 [ scc.merge] INFO 2026-07-20 00:01:19,687 [ scc.merge] INFO + git submodule sync Synchronizing submodule url for 'ZarrReader' Synchronizing submodule url for 'bio-formats-documentation' Synchronizing submodule url for 'bio-formats-examples' Synchronizing submodule url for 'bioformats' Synchronizing submodule url for 'ome-codecs' Synchronizing submodule url for 'ome-common-java' Synchronizing submodule url for 'ome-jai' Synchronizing submodule url for 'ome-mdbtools' Synchronizing submodule url for 'ome-metakit' Synchronizing submodule url for 'ome-model' Synchronizing submodule url for 'ome-poi' Synchronizing submodule url for 'ome-stubs' + git submodule update --remote --recursive Submodule path 'ZarrReader': checked out '5f3faa45fef73473bce6e4fc732a9cccc05c105d' Submodule path 'bio-formats-documentation': checked out 'a9bbcc329e504e78ae137971e1781ca5645e65fe' Submodule path 'bio-formats-examples': checked out '669e8f37d483c62a4f8e9da89f14b7a8220b883f' Submodule path 'bioformats': checked out '1178fa8b255244a5b6089a0a4cb2068203b94e86' Submodule path 'ome-codecs': checked out '61a7334fea6533ba945c2279a6d62a216a365936' Submodule path 'ome-common-java': checked out 'b721c0a395c970b27c150f080eb7e03efdd302c5' Submodule path 'ome-jai': checked out '029d825eea01e9d5f3c12528a230c95cd71a0cd1' Submodule path 'ome-mdbtools': checked out '52241813f78efa5191175a7952c0b2d89c215498' Submodule path 'ome-metakit': checked out 'b8b3a629a6dd9bf422949f6b175b9e310ba6e252' Submodule path 'ome-model': checked out '8be3f6cbeac93f1139012c309da057c1775131fd' Submodule path 'ome-poi': checked out 'f179bf4f5fcc0499d065a0e0b40141a2834e1751' Submodule path 'ome-stubs': checked out '5a2fdd0aa37fef5d34942d367f57de6f5916fc06' + echo 'Merge all submodules using repository configuration:' Merge all submodules using repository configuration: + cat scripts/repositories.yml base-branch: master submodules: ome-common-java: base-branch: master bioformats: base-branch: develop bio-formats-documentation: base-branch: master bio-formats-examples: base-branch: master ome-codecs: base-branch: master ome-common-java: base-branch: master ome-jai: base-branch: master ome-mdbtools: base-branch: master ome-metakit: base-branch: master ome-model: base-branch: master ome-poi: base-branch: master ome-stubs: base-branch: master ZarrReader: base-branch: main ++ pwd + scc merge --repository-config=/home/omero/workspace/BIOFORMATS-push/bio-formats-build/scripts/repositories.yml --no-ask --reset --comment -S success-only --update-gitmodules --push merge_ci master Following Github server redirection from /repos/openmicroscopy/bioformats to /repositories/2510503 2026-07-20 00:01:51,349 [github.Reque] INFO Following Github server redirection from /repos/openmicroscopy/bioformats to /repositories/2510503 2026-07-20 00:02:23,305 [ scc.merge] INFO Merging Pull Request(s) based on master 2026-07-20 00:02:23,305 [ scc.merge] INFO Including Pull Request(s) opened by any public member of the organization 2026-07-20 00:02:23,305 [ scc.merge] INFO Including Pull Request(s) labelled as include or dependencies 2026-07-20 00:02:23,306 [ scc.merge] INFO Excluding Pull Request(s) staged as draft 2026-07-20 00:02:23,306 [ scc.merge] INFO Excluding Pull Request(s) labelled as exclude or breaking 2026-07-20 00:02:23,306 [ scc.merge] INFO Excluding Pull Request(s) without successful status 2026-07-20 00:02:24,120 [ scc.git] INFO Overriding base-branch from master to main Traceback (most recent call last): File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/requests/adapters.py", line 696, in send resp = conn.urlopen( ^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/urllib3/connectionpool.py", line 897, in urlopen return self.urlopen( ^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/urllib3/connectionpool.py", line 897, in urlopen return self.urlopen( ^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/urllib3/connectionpool.py", line 897, in urlopen return self.urlopen( ^^^^^^^^^^^^^ [Previous line repeated 7 more times] File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/urllib3/connectionpool.py", line 887, in urlopen retries = retries.increment(method, url, response=response, _pool=self) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/GithubRetry.py", line 208, in increment return super().increment(method, url, response, error, _pool, _stacktrace) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/urllib3/util/retry.py", line 594, in increment raise MaxRetryError(_pool, url, error or ResponseError(cause)) urllib3.exceptions.MaxRetryError: HTTPSConnectionPool(host='api.github.com', port=443): Max retries exceeded with url: /repos/ome/bio-formats-documentation/issues/476 (Caused by ResponseError('too many 503 error responses')) During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/main.py", line 64, in entry_point main("scc", items=[ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/yaclifw/framework.py", line 188, in main ns.func(ns) File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 3332, in __call__ self.merge(args, self.main_repo) File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 3357, in merge updated, merge_msg = main_repo.rmerge( ^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 1851, in rmerge submodule_updated, submodule_msg = submodule_repo.rmerge( ^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 1822, in rmerge merge_msg += self.origin.find_candidate_pulls(filters) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 930, in find_candidate_pulls include, exclude_reason = self.filter_pull(pullrequest, filters) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 957, in filter_pull if pullrequest.parse(filters["exclude"].get("label"), ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 559, in parse found_comments = self.parse_comments(argument, ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 590, in parse_comments for comment in self.get_comments(whitelist=whitelist): ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 126, in wrapper error = check_exception_message(e) ^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 115, in wrapper return func(*args, **kwargs) ^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 714, in get_comments if not self.issue_comments and self.get_issue().comments: ^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 126, in wrapper error = check_exception_message(e) ^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 115, in wrapper return func(*args, **kwargs) ^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/scc/git.py", line 670, in get_issue self.issue = self.pull.base.repo.get_issue(self.get_number()) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/Repository.py", line 3165, in get_issue return github.Issue.Issue(self._requester, url=url) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/GithubObject.py", line 570, in __init__ self.complete() File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/GithubObject.py", line 615, in complete self._completeIfNeeded() File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/GithubObject.py", line 624, in _completeIfNeeded self._complete() File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/GithubObject.py", line 629, in _complete headers, data = self._requester.requestJsonAndCheck( ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/Requester.py", line 629, in requestJsonAndCheck *self.requestJson( ^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/Requester.py", line 1073, in requestJson status, responseHeaders, output = self.__requestEncode( ^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/Requester.py", line 1212, in __requestEncode status, responseHeaders, output = self.__requestRaw( ^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/Requester.py", line 1250, in __requestRaw response = cnx.getresponse() ^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/github/Requester.py", line 206, in getresponse r = verb( ^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/requests/sessions.py", line 671, in get return self.request("GET", url, params=params, **kwargs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/requests/sessions.py", line 651, in request resp = self.send(prep, **send_kwargs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/requests/sessions.py", line 784, in send r = adapter.send(request, **kwargs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/omero/workspace/BIOFORMATS-push/venv/lib64/python3.11/site-packages/requests/adapters.py", line 720, in send raise RetryError(e, request=request) requests.exceptions.RetryError: HTTPSConnectionPool(host='api.github.com', port=443): Max retries exceeded with url: /repos/ome/bio-formats-documentation/issues/476 (Caused by ResponseError('too many 503 error responses')) Build step 'Execute shell' marked build as failure Archiving artifacts Finished: FAILURE