Console Output
+ 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 '' ']'
++ '[' -n /bin/bash -o -n '' ']'
++ hash -r
++ '[' -n '' ']'
++ unset VIRTUAL_ENV
++ '[' '!' 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
++ '[' -n /bin/bash -o -n '' ']'
++ 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)
2025-02-27 01:00:47,033 [ scc.config] DEBUG Found github.token
2025-02-27 01:00:47,036 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2025-02-27 01:00:47,198 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2025-02-27 01:00:47,450 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2025-02-27 01:00:47,603 [urllib3.conn] DEBUG https://api.github.com:443 "GET /user HTTP/1.1" 200 None
2025-02-27 01:00:47,856 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2025-02-27 01:00:48,007 [urllib3.conn] DEBUG https://api.github.com:443 "GET /rate_limit HTTP/1.1" 200 None
2025-02-27 01:00:48,008 [ scc.gh] DEBUG 4396 remaining from 5000 (Reset at 01:02
2025-02-27 01:00:48,009 [ scc.git] DEBUG Calling 'git rev-parse --show-toplevel'
2025-02-27 01:00:48,013 [ scc.git] DEBUG Check current status
2025-02-27 01:00:48,014 [ scc.git] DEBUG Calling 'git log --oneline -n 1 HEAD'
2025-02-27 01:00:48,018 [ scc.git] DEBUG 5a57d6a Merge pull request #298 from ome/dependabot/submodules/scripts-c7a3c70
2025-02-27 01:00:48,018 [ scc.git] DEBUG Calling 'git submodule status'
2025-02-27 01:00:48,062 [ scc.git] DEBUG 248e8cbfb0372b3d3be2d82cfe9234dd2e25c140 cellprofiler (v0.4.0-32-g248e8cb)
2025-02-27 01:00:48,072 [ scc.git] DEBUG 4b1b912438f7415faf2d1f618d596968121bcfe8 download (4b1b912)
2025-02-27 01:00:48,077 [ scc.git] DEBUG 654d43b5ef64f56bd6a99c69a9c98cbb5c8f76a7 figure (v0.1.0-55-g654d43b)
2025-02-27 01:00:48,080 [ scc.git] DEBUG 218b05a197695f01d8fc3d2cc6d197981df701c9 fiji (v0.2.1-86-g218b05a)
2025-02-27 01:00:48,090 [ scc.git] DEBUG 8f4b1035592a83dacf55e5cb585fd6ebe775f7f4 fpbioimage (heads/master)
2025-02-27 01:00:48,093 [ scc.git] DEBUG f7b4afbe7c171a2063a46916851a26a84b83c4e6 ilastik (v0.3.4-2-gf7b4afb)
2025-02-27 01:00:48,103 [ scc.git] DEBUG d9033638b26778db35de1c77428190ac4cad1936 introduction (heads/master)
2025-02-27 01:00:48,112 [ scc.git] DEBUG 6ed80b33e8ddc97c930e3ea8ba00702f34e0a8ed iviewer (heads/master)
2025-02-27 01:00:48,115 [ scc.git] DEBUG a4b6b55205d0588c48baa8177aa7608fd40b3f85 java (v0.1.1-17-ga4b6b55)
2025-02-27 01:00:48,118 [ scc.git] DEBUG ecbd07c31df9b103937f4803aa35f104480365f2 matlab (v0.1.0-26-gecbd07c)
2025-02-27 01:00:48,128 [ scc.git] DEBUG d43e17feb8400f35a51d20e050b8a87bcdbcd1eb mde (heads/master)
2025-02-27 01:00:48,137 [ scc.git] DEBUG 4ef1eaaf315bbb8ae56e9ea780971735dc406f46 orbit (heads/master)
2025-02-27 01:00:48,147 [ scc.git] DEBUG 0875cf1cbb43411bfd5849763da8fe7d2bdafdc0 parade (0875cf1)
2025-02-27 01:00:48,150 [ scc.git] DEBUG b633fb39b1f0145f8897fcb4b6cbe22b083cdb43 python (v0.3.0-91-gb633fb3)
2025-02-27 01:00:48,161 [ scc.git] DEBUG 6db8b1ceb6e7a44eb6145b4976fb3e048b04ee4f qupath (heads/master)
2025-02-27 01:00:48,164 [ scc.git] DEBUG a770a1048469668b66f5bde686d5b6d84d021e6d r (v0.1.0-24-ga770a10)
2025-02-27 01:00:48,174 [ scc.git] DEBUG c7a3c703cee0d8b2db2dccff92f0d48975f55789 scripts (remotes/origin/HEAD)
2025-02-27 01:00:48,184 [ scc.git] DEBUG ffe98a8835c0f1bf345cb9ec0cfd2ba4aa304bd1 trackmate (heads/master)
2025-02-27 01:00:48,187 [ scc.git] DEBUG 7c953a800e9efa6a8d90a8b62f1d44df4fac47dd upload (v0.1.0-96-g7c953a8)
2025-02-27 01:00:48,192 [ scc.config] DEBUG Found remote.origin.url
2025-02-27 01:00:48,260 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2025-02-27 01:00:48,560 [urllib3.conn] DEBUG https://api.github.com:443 "GET /repos/ome/omero-guides HTTP/1.1" 200 None
2025-02-27 01:00:48,813 [urllib3.conn] DEBUG Starting new HTTPS connection (1): api.github.com:443
2025-02-27 01:00:48,872 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=9, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,872 [urllib3.conn] WARNI Retrying (GithubRetry(total=9, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c459c10>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,872 [urllib3.conn] DEBUG Starting new HTTPS connection (2): api.github.com:443
2025-02-27 01:00:48,873 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=8, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,873 [urllib3.conn] WARNI Retrying (GithubRetry(total=8, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c459d90>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,873 [urllib3.conn] DEBUG Starting new HTTPS connection (3): api.github.com:443
2025-02-27 01:00:48,873 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=7, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,873 [urllib3.conn] WARNI Retrying (GithubRetry(total=7, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c459f40>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,874 [urllib3.conn] DEBUG Starting new HTTPS connection (4): api.github.com:443
2025-02-27 01:00:48,874 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=6, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,874 [urllib3.conn] WARNI Retrying (GithubRetry(total=6, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c461130>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,874 [urllib3.conn] DEBUG Starting new HTTPS connection (5): api.github.com:443
2025-02-27 01:00:48,874 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=5, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,874 [urllib3.conn] WARNI Retrying (GithubRetry(total=5, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c4612e0>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,875 [urllib3.conn] DEBUG Starting new HTTPS connection (6): api.github.com:443
2025-02-27 01:00:48,875 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=4, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,875 [urllib3.conn] WARNI Retrying (GithubRetry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c461490>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,875 [urllib3.conn] DEBUG Starting new HTTPS connection (7): api.github.com:443
2025-02-27 01:00:48,876 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=3, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,876 [urllib3.conn] WARNI Retrying (GithubRetry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c461640>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,876 [urllib3.conn] DEBUG Starting new HTTPS connection (8): api.github.com:443
2025-02-27 01:00:48,876 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=2, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,876 [urllib3.conn] WARNI Retrying (GithubRetry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c4617f0>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,876 [urllib3.conn] DEBUG Starting new HTTPS connection (9): api.github.com:443
2025-02-27 01:00:48,877 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=1, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,877 [urllib3.conn] WARNI Retrying (GithubRetry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c4619a0>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,877 [urllib3.conn] DEBUG Starting new HTTPS connection (10): api.github.com:443
2025-02-27 01:00:48,877 [urllib3.util] DEBUG Incremented Retry for (url='/orgs/ome'): GithubRetry(total=0, connect=None, read=None, redirect=None, status=None)
2025-02-27 01:00:48,877 [urllib3.conn] WARNI Retrying (GithubRetry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c461b50>: Failed to establish a new connection: [Errno -2] Name or service not known')': /orgs/ome
2025-02-27 01:00:48,877 [urllib3.conn] DEBUG Starting new HTTPS connection (11): api.github.com:443
2025-02-27 01:00:48,878 [ scc.repo] ERROR Failed to find ome/omero-guides
Traceback (most recent call last):
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connection.py", line 174, in _new_conn
conn = connection.create_connection(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/util/connection.py", line 72, in create_connection
for res in socket.getaddrinfo(host, port, family, socket.SOCK_STREAM):
File "/usr/lib64/python3.9/socket.py", line 954, in getaddrinfo
for res in _socket.getaddrinfo(host, port, family, type, proto, flags):
socket.gaierror: [Errno -2] Name or service not known
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 716, in urlopen
httplib_response = self._make_request(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 404, in _make_request
self._validate_conn(conn)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 1061, in _validate_conn
conn.connect()
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connection.py", line 363, in connect
self.sock = conn = self._new_conn()
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connection.py", line 186, in _new_conn
raise NewConnectionError(
urllib3.exceptions.NewConnectionError: <urllib3.connection.HTTPSConnection object at 0x7fc77c461d00>: Failed to establish a new connection: [Errno -2] Name or service not known
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/requests/adapters.py", line 667, in send
resp = conn.urlopen(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 830, in urlopen
return self.urlopen(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 830, in urlopen
return self.urlopen(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 830, in urlopen
return self.urlopen(
[Previous line repeated 7 more times]
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/urllib3/connectionpool.py", line 802, in urlopen
retries = retries.increment(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/GithubRetry.py", line 205, in increment
return super().increment(method, url, response, error, _pool, _stacktrace)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/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: /orgs/ome (Caused by NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c461d00>: Failed to establish a new connection: [Errno -2] Name or service not known'))
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/main.py", line 64, in entry_point
main("scc", items=[
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/yaclifw/framework.py", line 188, in main
ns.func(ns)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 3329, in __call__
self.init_main_repo(args)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 2179, in init_main_repo
self.main_repo = self.gh.git_repo(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 386, in git_repo
return GitRepository(self, os.path.abspath(path), *args, **kwargs)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 1104, in __init__
self.origin = gh.gh_repo(repo_name, user_name)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 379, in gh_repo
return GitHubRepository(self, username, reponame)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 774, in __init__
self.org = gh.get_organization(self.repo.organization.login)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 126, in wrapper
error = check_exception_message(e)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 115, in wrapper
return func(*args, **kwargs)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/scc/git.py", line 301, in get_organization
return self.github.get_organization(*args)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/MainClass.py", line 434, in get_organization
headers, data = self.__requester.requestJsonAndCheck("GET", f"/orgs/{org}")
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/Requester.py", line 625, in requestJsonAndCheck
*self.requestJson(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/Requester.py", line 959, in requestJson
status, responseHeaders, output = self.__requestEncode(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/Requester.py", line 1098, in __requestEncode
status, responseHeaders, output = self.__requestRaw(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/Requester.py", line 1136, in __requestRaw
response = cnx.getresponse()
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/github/Requester.py", line 214, in getresponse
r = verb(
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/requests/sessions.py", line 602, in get
return self.request("GET", url, **kwargs)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/requests/sessions.py", line 589, in request
resp = self.send(prep, **send_kwargs)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/requests/sessions.py", line 703, in send
r = adapter.send(request, **kwargs)
File "/home/omero/workspace/OMERO-guides-push/build/venv/lib64/python3.9/site-packages/requests/adapters.py", line 700, in send
raise ConnectionError(e, request=request)
requests.exceptions.ConnectionError: HTTPSConnectionPool(host='api.github.com', port=443): Max retries exceeded with url: /orgs/ome (Caused by NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7fc77c461d00>: Failed to establish a new connection: [Errno -2] Name or service not known'))
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