[Qa-jenkins-scm] Build failed in Jenkins: reproducible_scheduler #36228

Sun Jul 24 23:50:38 BST 2022

See <https://jenkins.debian.net/job/reproducible_scheduler/36228/display/redirect>

Changes:

------------------------------------------
Started by timer
Running as SYSTEM
[EnvInject] - Loading node environment variables.
Building on the built-in node in workspace <https://jenkins.debian.net/job/reproducible_scheduler/ws/>
[workspace] $ /bin/sh -xe /tmp/jenkins17793561876962143947.sh
+ /srv/jenkins/bin/reproducible_scheduler.py
/srv/jenkins/bin/reproducible_scheduler.py:15: DeprecationWarning: please use 'debian.deb822' instead
  import deb822
[2022-07-24 22:39:26] INFO: Starting at 2022-07-24 22:39:26.027660
[2022-07-24 22:39:26] INFO: Updating sources tables for all suites.
[2022-07-24 22:39:26] INFO: Downloading sources file for stretch: http://deb.debian.org/debian/dists/stretch/main/source/Sources.xz
[2022-07-24 22:39:29] INFO: Updating sources db for stretch/amd64...
/usr/lib/python3/dist-packages/debian/deb822.py:748: UserWarning: Parsing of Deb822 data with python-apt's apt_pkg was requested but this cannot be done on non-file input.
  warnings.warn(msg)
[2022-07-24 22:39:46] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:39:59] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:39:59] INFO: DB update done for stretch/amd64 done at 2022-07-24 22:39:59.
[2022-07-24 22:39:59] INFO: Updating sources db for stretch/i386...
[2022-07-24 22:40:17] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:40:29] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:40:29] INFO: DB update done for stretch/i386 done at 2022-07-24 22:40:29.
[2022-07-24 22:40:29] INFO: Updating sources db for stretch/arm64...
[2022-07-24 22:40:46] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:40:58] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:40:58] INFO: DB update done for stretch/arm64 done at 2022-07-24 22:40:58.
[2022-07-24 22:40:58] INFO: Updating sources db for stretch/armhf...
[2022-07-24 22:41:19] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:41:32] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:41:32] INFO: DB update done for stretch/armhf done at 2022-07-24 22:41:32.
[2022-07-24 22:41:32] INFO: Sources for suite stretch done at 2022-07-24 22:41:32.
[2022-07-24 22:41:32] INFO: Downloading sources file for buster: http://deb.debian.org/debian/dists/buster/main/source/Sources.xz
[2022-07-24 22:41:35] INFO: Updating sources db for buster/amd64...
[2022-07-24 22:41:55] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:42:14] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:42:14] INFO: DB update done for buster/amd64 done at 2022-07-24 22:42:14.
[2022-07-24 22:42:14] INFO: Updating sources db for buster/i386...
[2022-07-24 22:42:34] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:42:53] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:42:53] INFO: DB update done for buster/i386 done at 2022-07-24 22:42:53.
[2022-07-24 22:42:53] INFO: Updating sources db for buster/arm64...
[2022-07-24 22:43:14] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:43:33] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:43:33] INFO: DB update done for buster/arm64 done at 2022-07-24 22:43:33.
[2022-07-24 22:43:33] INFO: Updating sources db for buster/armhf...
[2022-07-24 22:43:53] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:44:09] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:44:09] INFO: DB update done for buster/armhf done at 2022-07-24 22:44:09.
[2022-07-24 22:44:09] INFO: Sources for suite buster done at 2022-07-24 22:44:09.
[2022-07-24 22:44:09] INFO: Downloading sources file for bullseye: http://deb.debian.org/debian/dists/bullseye/main/source/Sources.xz
[2022-07-24 22:44:10] INFO: Updating sources db for bullseye/amd64...
[2022-07-24 22:44:32] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:44:52] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:44:52] INFO: DB update done for bullseye/amd64 done at 2022-07-24 22:44:52.
[2022-07-24 22:44:52] INFO: Updating sources db for bullseye/i386...
[2022-07-24 22:45:15] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:45:35] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:45:35] INFO: DB update done for bullseye/i386 done at 2022-07-24 22:45:35.
[2022-07-24 22:45:35] INFO: Updating sources db for bullseye/arm64...
[2022-07-24 22:45:57] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:46:19] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:46:19] INFO: DB update done for bullseye/arm64 done at 2022-07-24 22:46:19.
[2022-07-24 22:46:19] INFO: Updating sources db for bullseye/armhf...
[2022-07-24 22:46:41] INFO: Pushing 0 updated packages to the database...
[2022-07-24 22:47:05] INFO: Now deleting 0 removed packages: []
[2022-07-24 22:47:05] INFO: DB update done for bullseye/armhf done at 2022-07-24 22:47:05.
[2022-07-24 22:47:05] INFO: Sources for suite bullseye done at 2022-07-24 22:47:05.
[2022-07-24 22:47:05] INFO: Downloading sources file for bookworm: http://deb.debian.org/debian/dists/bookworm/main/source/Sources.xz
[2022-07-24 22:47:07] INFO: Updating sources db for bookworm/amd64...
[2022-07-24 22:47:31] INFO: Pushing 17 updated packages to the database...
[2022-07-24 22:47:31] INFO: Now inserting 5 new sources in the database: [{'name': 'ncbi-acc-download', 'version': '0.2.8-1', 'suite': 'bookworm', 'architecture': 'amd64'}, {'name': 'idseq-bench', 'version': '0.0~git20210602.27fb6dc-1', 'suite': 'bookworm', 'architecture': 'amd64'}, {'name': 'nanofilt', 'version': '2.6.0-4', 'suite': 'bookworm', 'architecture': 'amd64'}, {'name': 'nanolyse', 'version': '1.2.0-3', 'suite': 'bookworm', 'architecture': 'amd64'}, {'name': 'libnet-amazon-signature-v4-perl', 'version': '0.21-2', 'suite': 'bookworm', 'architecture': 'amd64'}]
[2022-07-24 22:47:56] INFO: Now deleting 3 removed packages: ['rdflib', 'cwl-upgrader', 'python-schema-salad']
[2022-07-24 22:47:57] INFO: Building pages for the new packages
[2022-07-24 22:47:57] INFO: Generating the pages of 5 package(s)
[2022-07-24 22:48:01] INFO: DB update done for bookworm/amd64 done at 2022-07-24 22:48:01.
[2022-07-24 22:48:01] INFO: Updating sources db for bookworm/i386...
[2022-07-24 22:48:28] INFO: Pushing 17 updated packages to the database...
[2022-07-24 22:48:29] INFO: Now inserting 5 new sources in the database: [{'name': 'ncbi-acc-download', 'version': '0.2.8-1', 'suite': 'bookworm', 'architecture': 'i386'}, {'name': 'idseq-bench', 'version': '0.0~git20210602.27fb6dc-1', 'suite': 'bookworm', 'architecture': 'i386'}, {'name': 'nanofilt', 'version': '2.6.0-4', 'suite': 'bookworm', 'architecture': 'i386'}, {'name': 'nanolyse', 'version': '1.2.0-3', 'suite': 'bookworm', 'architecture': 'i386'}, {'name': 'libnet-amazon-signature-v4-perl', 'version': '0.21-2', 'suite': 'bookworm', 'architecture': 'i386'}]
[2022-07-24 22:48:54] INFO: Now deleting 3 removed packages: ['rdflib', 'cwl-upgrader', 'python-schema-salad']
[2022-07-24 22:48:54] INFO: Building pages for the new packages
[2022-07-24 22:48:54] INFO: Generating the pages of 5 package(s)
[2022-07-24 22:48:55] INFO: DB update done for bookworm/i386 done at 2022-07-24 22:48:55.
[2022-07-24 22:48:55] INFO: Updating sources db for bookworm/arm64...
[2022-07-24 22:49:21] INFO: Pushing 17 updated packages to the database...
[2022-07-24 22:49:21] INFO: Now inserting 5 new sources in the database: [{'name': 'ncbi-acc-download', 'version': '0.2.8-1', 'suite': 'bookworm', 'architecture': 'arm64'}, {'name': 'idseq-bench', 'version': '0.0~git20210602.27fb6dc-1', 'suite': 'bookworm', 'architecture': 'arm64'}, {'name': 'nanofilt', 'version': '2.6.0-4', 'suite': 'bookworm', 'architecture': 'arm64'}, {'name': 'nanolyse', 'version': '1.2.0-3', 'suite': 'bookworm', 'architecture': 'arm64'}, {'name': 'libnet-amazon-signature-v4-perl', 'version': '0.21-2', 'suite': 'bookworm', 'architecture': 'arm64'}]
[2022-07-24 22:49:49] INFO: Now deleting 3 removed packages: ['rdflib', 'cwl-upgrader', 'python-schema-salad']
[2022-07-24 22:49:49] INFO: Building pages for the new packages
[2022-07-24 22:49:49] INFO: Generating the pages of 5 package(s)
[2022-07-24 22:49:50] INFO: DB update done for bookworm/arm64 done at 2022-07-24 22:49:50.
[2022-07-24 22:49:50] INFO: Updating sources db for bookworm/armhf...
[2022-07-24 22:50:14] INFO: Pushing 17 updated packages to the database...
[2022-07-24 22:50:15] INFO: Now inserting 5 new sources in the database: [{'name': 'ncbi-acc-download', 'version': '0.2.8-1', 'suite': 'bookworm', 'architecture': 'armhf'}, {'name': 'idseq-bench', 'version': '0.0~git20210602.27fb6dc-1', 'suite': 'bookworm', 'architecture': 'armhf'}, {'name': 'nanofilt', 'version': '2.6.0-4', 'suite': 'bookworm', 'architecture': 'armhf'}, {'name': 'nanolyse', 'version': '1.2.0-3', 'suite': 'bookworm', 'architecture': 'armhf'}, {'name': 'libnet-amazon-signature-v4-perl', 'version': '0.21-2', 'suite': 'bookworm', 'architecture': 'armhf'}]
[2022-07-24 22:50:37] INFO: Now deleting 3 removed packages: ['python-schema-salad', 'rdflib', 'cwl-upgrader']
Traceback (most recent call last):
  File "/usr/lib/python3/dist-packages/sqlalchemy/engine/base.py", line 1256, in _execute_context
    self.dialect.do_executemany(
  File "/usr/lib/python3/dist-packages/sqlalchemy/dialects/postgresql/psycopg2.py", line 898, in do_executemany
    cursor.executemany(statement, parameters)
psycopg2.errors.UniqueViolation: duplicate key value violates unique constraint "removed_packages_pkey"
DETAIL:  Key (name, suite, architecture)=(cwl-upgrader, bookworm, armhf) already exists.

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
  File "/srv/jenkins/bin/reproducible_scheduler.py", line 798, in <module>
    update_sources(suite)
  File "/srv/jenkins/bin/reproducible_scheduler.py", line 304, in update_sources
    update_sources_db(suite, arch, sources)
  File "/srv/jenkins/bin/reproducible_scheduler.py", line 425, in update_sources_db
    conn_db.execute(removed_packages_table.insert(), pkgs_to_rm)
  File "/usr/lib/python3/dist-packages/sqlalchemy/engine/base.py", line 1011, in execute
    return meth(self, multiparams, params)
  File "/usr/lib/python3/dist-packages/sqlalchemy/sql/elements.py", line 298, in _execute_on_connection
    return connection._execute_clauseelement(self, multiparams, params)
  File "/usr/lib/python3/dist-packages/sqlalchemy/engine/base.py", line 1124, in _execute_clauseelement
    ret = self._execute_context(
  File "/usr/lib/python3/dist-packages/sqlalchemy/engine/base.py", line 1316, in _execute_context
    self._handle_dbapi_exception(
  File "/usr/lib/python3/dist-packages/sqlalchemy/engine/base.py", line 1510, in _handle_dbapi_exception
    util.raise_(
  File "/usr/lib/python3/dist-packages/sqlalchemy/util/compat.py", line 182, in raise_
    raise exception
  File "/usr/lib/python3/dist-packages/sqlalchemy/engine/base.py", line 1256, in _execute_context
    self.dialect.do_executemany(
  File "/usr/lib/python3/dist-packages/sqlalchemy/dialects/postgresql/psycopg2.py", line 898, in do_executemany
    cursor.executemany(statement, parameters)
sqlalchemy.exc.IntegrityError: (psycopg2.errors.UniqueViolation) duplicate key value violates unique constraint "removed_packages_pkey"
DETAIL:  Key (name, suite, architecture)=(cwl-upgrader, bookworm, armhf) already exists.

[SQL: INSERT INTO removed_packages (name, suite, architecture) VALUES (%(name)s, %(suite)s, %(architecture)s)]
[parameters: ({'name': 'python-schema-salad', 'suite': 'bookworm', 'architecture': 'armhf'}, {'name': 'rdflib', 'suite': 'bookworm', 'architecture': 'armhf'}, {'name': 'cwl-upgrader', 'suite': 'bookworm', 'architecture': 'armhf'})]
(Background on this error at: http://sqlalche.me/e/13/gkpj)
[2022-07-24 22:50:38] INFO: Finished at 2022-07-24 22:50:38.057418, took: 0:11:12.029765
Build step 'Execute shell' marked build as failure