Started by upstream project "Trigger" build number 148
originally caused by:
 Started by timer
Running as SYSTEM
Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
[OMERO-server] $ /bin/bash -xe /tmp/jenkins14129340919024373264.sh
+ source /home/settings.env
++ OMERO_DB_HOST=pg
++ OMERO_DB_USER=postgres
++ OMERO_DB_PASS=
++ OMERO_ROOT_PASS=omero
++ OMERO_DATA_DIR=/OMERO
++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
+ OMERO_DB_NAME=OMERO-server
+ OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
+ export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
+ OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
+ OMERO_DATA_DIR=/home/omero/omero-server-data
+ '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
+ source /home/omero/workspace/OMERO-server/.venv3/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-server/.venv3
++ 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-server/.venv3/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='(.venv3) '
++ export PS1
++ '[' -n /bin/bash -o -n '' ']'
++ hash -r
+ omero admin stop
Waiting on shutdown. Use CTRL-C to exit
.+ sleep 5
+ deactivate
+ '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
+ PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
+ export PATH
+ unset _OLD_VIRTUAL_PATH
+ '[' -n '' ']'
+ '[' -n /bin/bash -o -n '' ']'
+ hash -r
+ '[' -n '' ']'
+ unset VIRTUAL_ENV
+ '[' '!' '' = nondestructive ']'
+ unset -f deactivate
+ rm -rf /home/omero/workspace/OMERO-server/.venv3
+ python3 -m venv /home/omero/workspace/OMERO-server/.venv3
+ '[' false = true ']'
+ echo 'Skipping PURGE_DATA:CleanDbAndRepo'
Skipping PURGE_DATA:CleanDbAndRepo
+ rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.4-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.5.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.26.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
Copied 1 artifact from "OMERO-build" build number 126
Copied 5 artifacts from "OMERO-python-superbuild-build" build number 125
Copied 2 artifacts from "OMERO-build-build" build number 128
[OMERO-server] $ /bin/bash -xe /tmp/jenkins17724934612193475326.sh
+ source /home/settings.env
++ OMERO_DB_HOST=pg
++ OMERO_DB_USER=postgres
++ OMERO_DB_PASS=
++ OMERO_ROOT_PASS=omero
++ OMERO_DATA_DIR=/OMERO
++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
+ OMERO_DB_NAME=OMERO-server
+ OMERO_DATA_DIR=/home/omero/omero-server-data
+ mkdir -p /home/omero/omero-server-data
+ OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
+ export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
+ OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
+ export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
+ ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
+ export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
+ VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
++ ls OMERO.server-5.6.3-485-2a6e4b543f-ice36.zip
+ ZIP=OMERO.server-5.6.3-485-2a6e4b543f-ice36.zip
+ '[' '!' -z '' ']'
+ DIST=OMERO.server-5.6.3-485-2a6e4b543f-ice36
+ unzip OMERO.server-5.6.3-485-2a6e4b543f-ice36.zip
Archive:  OMERO.server-5.6.3-485-2a6e4b543f-ice36.zip
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+ rm -f OMERO.server-5.6.3-485-2a6e4b543f-ice36.zip
+ mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-485-2a6e4b543f-ice36 /home/omero/workspace/OMERO-server/OMERO.server
+ source /home/omero/workspace/OMERO-server/.venv3/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-server/.venv3
++ 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-server/.venv3/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='(.venv3) '
++ export PS1
++ '[' -n /bin/bash -o -n '' ']'
++ hash -r
+ pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
Collecting zeroc-ice==3.6.5
  Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
Installing collected packages: zeroc-ice
Successfully installed zeroc-ice-3.6.5
+ pip install -U pip future
Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
Collecting pip
  Using cached pip-24.1.2-py3-none-any.whl (1.8 MB)
Collecting future
  Using cached future-1.0.0-py3-none-any.whl (491 kB)
Installing collected packages: pip, future
  Attempting uninstall: pip
    Found existing installation: pip 21.2.3
    Uninstalling pip-21.2.3:
      Successfully uninstalled pip-21.2.3
Successfully installed future-1.0.0 pip-24.1.2
+ pip install markdown
Collecting markdown
  Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
Collecting importlib-metadata>=4.4 (from markdown)
  Downloading importlib_metadata-8.1.0-py3-none-any.whl.metadata (4.7 kB)
Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
  Using cached zipp-3.19.2-py3-none-any.whl.metadata (3.6 kB)
Using cached Markdown-3.6-py3-none-any.whl (105 kB)
Downloading importlib_metadata-8.1.0-py3-none-any.whl (25 kB)
Using cached zipp-3.19.2-py3-none-any.whl (9.0 kB)
Installing collected packages: zipp, importlib-metadata, markdown
Successfully installed importlib-metadata-8.1.0 markdown-3.6 zipp-3.19.2
+ pip install reportlab
Collecting reportlab
  Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
Collecting pillow>=9.0.0 (from reportlab)
  Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
Collecting chardet (from reportlab)
  Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
Installing collected packages: pillow, chardet, reportlab
Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
+ pip install omego
Collecting omego
  Using cached omego-0.7.0-py3-none-any.whl
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
Collecting yaclifw>=0.1.1 (from omego)
  Using cached yaclifw-0.2.0-py3-none-any.whl
Collecting six (from yaclifw>=0.1.1->omego)
  Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
Installing collected packages: six, yaclifw, omego
Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
+ pip install tables
Collecting tables
  Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
Collecting numpy>=1.19.0 (from tables)
  Using cached numpy-2.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
Collecting numexpr>=2.6.2 (from tables)
  Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
Collecting packaging (from tables)
  Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
Collecting py-cpuinfo (from tables)
  Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
Collecting blosc2>=2.3.0 (from tables)
  Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
  Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
Collecting msgpack (from blosc2>=2.3.0->tables)
  Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
Using cached numpy-2.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
Using cached packaging-24.1-py3-none-any.whl (53 kB)
Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
Using cached ndindex-1.8-py3-none-any.whl (91 kB)
Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.1 numpy-2.0.1 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
+ pip install jinja2
Collecting jinja2
  Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
Collecting MarkupSafe>=2.0 (from jinja2)
  Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
Installing collected packages: MarkupSafe, jinja2
Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
+ pip install omero-py
Collecting omero-py
  Using cached omero_py-5.19.4-py3-none-any.whl.metadata (6.3 kB)
Collecting urllib3<2 (from omero-py)
  Using cached urllib3-1.26.19-py2.py3-none-any.whl.metadata (49 kB)
Collecting appdirs (from omero-py)
  Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
Collecting numpy<2 (from omero-py)
  Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
Collecting PyYAML (from omero-py)
  Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
Collecting requests (from omero-py)
  Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
Collecting portalocker (from omero-py)
  Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
Collecting charset-normalizer<4,>=2 (from requests->omero-py)
  Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
Collecting idna<4,>=2.5 (from requests->omero-py)
  Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
Collecting certifi>=2017.4.17 (from requests->omero-py)
  Using cached certifi-2024.7.4-py3-none-any.whl.metadata (2.2 kB)
Using cached omero_py-5.19.4-py3-none-any.whl (2.8 MB)
Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
Using cached urllib3-1.26.19-py2.py3-none-any.whl (143 kB)
Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
Using cached requests-2.32.3-py3-none-any.whl (64 kB)
Using cached certifi-2024.7.4-py3-none-any.whl (162 kB)
Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
Using cached idna-3.7-py3-none-any.whl (66 kB)
Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
  Attempting uninstall: numpy
    Found existing installation: numpy 2.0.1
    Uninstalling numpy-2.0.1:
      Successfully uninstalled numpy-2.0.1
Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.7.4 charset-normalizer-3.3.2 idna-3.7 numpy-1.26.4 omero-py-5.19.4 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.19
+ pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
Collecting omero-metadata
  Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-lya7j3ww/omero-metadata_40c3f88898854cae95f32adf3675f406
  Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-lya7j3ww/omero-metadata_40c3f88898854cae95f32adf3675f406
  Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit b449383807b1a092a59602be08ef31ce0206fd9b
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.4)
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
Collecting pandas (from omero-metadata)
  Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.4.0)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
  Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
Collecting pytz>=2020.1 (from pandas->omero-metadata)
  Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting tzdata>=2022.7 (from pandas->omero-metadata)
  Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.7.4)
Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
Building wheels for collected packages: omero-metadata
  Building wheel for omero-metadata (pyproject.toml): started
  Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
  Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39112 sha256=caf48d0d8dda74b92d2d4e81f38e71d0f37c1a142400b6894d2843b8a312c654
  Stored in directory: /tmp/pip-ephem-wheel-cache-3gbcqxn7/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
Successfully built omero-metadata
Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
+ pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
Collecting omero-cli-render
  Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-man2_r2g/omero-cli-render_1d385fec2b9d4321a70f38a16ede6bb0
  Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-man2_r2g/omero-cli-render_1d385fec2b9d4321a70f38a16ede6bb0
  Running command git checkout -b merge_ci --track origin/merge_ci
  Switched to a new branch 'merge_ci'
  branch 'merge_ci' set up to track 'origin/merge_ci'.
  Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 2400c92295174fe48e9e629093caa0948dea6525
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.4)
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.4.0)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.7.4)
Building wheels for collected packages: omero-cli-render
  Building wheel for omero-cli-render (pyproject.toml): started
  Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
  Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18031 sha256=2afa4560f9d7c93c742ad162a32d2075cbd6f1f6d194d61f597e48b8c852e090
  Stored in directory: /tmp/pip-ephem-wheel-cache-rwb28vyy/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
Successfully built omero-cli-render
Installing collected packages: omero-cli-render
Successfully installed omero-cli-render-0.8.1.dev0
+ pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
Collecting omero-cli-duplicate
  Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-5ixx5pyh/omero-cli-duplicate_dd9d96da349e4ed2903e12874cc2d29d
  Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-5ixx5pyh/omero-cli-duplicate_dd9d96da349e4ed2903e12874cc2d29d
  Running command git checkout -b merge_ci --track origin/merge_ci
  Switched to a new branch 'merge_ci'
  branch 'merge_ci' set up to track 'origin/merge_ci'.
  Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit c29e8f778016e46ead51855b8202654505a28bc9
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.4)
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.4.0)
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.7.4)
Building wheels for collected packages: omero-cli-duplicate
  Building wheel for omero-cli-duplicate (pyproject.toml): started
  Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
  Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=52ba7b8a10739cdd1fe585679875b646ecf6ff6de11144f8a8dbe59d0f601c1d
  Stored in directory: /tmp/pip-ephem-wheel-cache-l1r5v1a7/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
Successfully built omero-cli-duplicate
Installing collected packages: omero-cli-duplicate
Successfully installed omero-cli-duplicate-0.4.1.dev0
+ pip install omero-certificates
Collecting omero-certificates
  Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.4)
Collecting distro==1.8.0 (from omero-certificates)
  Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.4.0)
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.7.4)
Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
Using cached distro-1.8.0-py3-none-any.whl (20 kB)
Installing collected packages: distro, omero-certificates
Successfully installed distro-1.8.0 omero-certificates-0.3.2
+ for x in *.tar.gz
+ pip install -U omero_dropbox-5.7.1.dev0.tar.gz
Processing ./omero_dropbox-5.7.1.dev0.tar.gz
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.4)
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.4.0)
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.1)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.7.4)
Building wheels for collected packages: omero-dropbox
  Building wheel for omero-dropbox (pyproject.toml): started
  Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
  Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=4527296ce9f99308c5c47ce05232ac2c90f55306b9e0df67133aa5475649de60
  Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
Successfully built omero-dropbox
Installing collected packages: omero-dropbox
Successfully installed omero-dropbox-5.7.1.dev0
+ for x in *.tar.gz
+ pip install -U omero_marshal-0.9.1.dev0.tar.gz
Processing ./omero_marshal-0.9.1.dev0.tar.gz
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Building wheels for collected packages: omero_marshal
  Building wheel for omero_marshal (pyproject.toml): started
  Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
  Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=a1757a72ccf56514069e31b9f42fb19840cf40701850c119e257d3e0c2b9bcf7
  Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
Successfully built omero_marshal
Installing collected packages: omero_marshal
Successfully installed omero_marshal-0.9.1.dev0
+ for x in *.tar.gz
+ pip install -U omero_py-5.19.5.dev0.tar.gz
Processing ./omero_py-5.19.5.dev0.tar.gz
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.4)
Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (10.4.0)
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (6.0.1)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.32.3)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.10.1)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (2024.7.4)
Building wheels for collected packages: omero-py
  Building wheel for omero-py (pyproject.toml): started
  Building wheel for omero-py (pyproject.toml): finished with status 'done'
  Created wheel for omero-py: filename=omero_py-5.19.5.dev0-py3-none-any.whl size=2782907 sha256=245c7236219241cabdcf0f0a4bbc8c2548e9d78e8ef7a9a6ed12a0b39f1ae8da
  Stored in directory: /home/omero/.cache/pip/wheels/f8/22/3c/b4269ea2035cdd4c3f15d9990f88c807cd4a53e7b729c42a16
Successfully built omero-py
Installing collected packages: omero-py
  Attempting uninstall: omero-py
    Found existing installation: omero-py 5.19.4
    Uninstalling omero-py-5.19.4:
      Successfully uninstalled omero-py-5.19.4
Successfully installed omero-py-5.19.5.dev0
+ for x in *.tar.gz
+ pip install -U omero_scripts-5.8.3.dev0.tar.gz
Processing ./omero_scripts-5.8.3.dev0.tar.gz
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Building wheels for collected packages: omero-scripts
  Building wheel for omero-scripts (pyproject.toml): started
  Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
  Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116556 sha256=977480cdebb969ee713cab6fb1eb5bb497c14b40daf48c57ea6426173b52ebd7
  Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
Successfully built omero-scripts
Installing collected packages: omero-scripts
Successfully installed omero-scripts-5.8.3.dev0
+ for x in *.tar.gz
+ pip install -U omero_web-5.26.1.dev0.tar.gz
Processing ./omero_web-5.26.1.dev0.tar.gz
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (5.19.5.dev0)
Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.26.1.dev0)
  Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
Collecting Django<4.3,>=4.2.3 (from omero-web==5.26.1.dev0)
  Using cached Django-4.2.14-py3-none-any.whl.metadata (4.1 kB)
Collecting django-pipeline==2.1.0 (from omero-web==5.26.1.dev0)
  Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
Collecting django-cors-headers==3.7.0 (from omero-web==5.26.1.dev0)
  Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
Collecting django-csp (from omero-web==5.26.1.dev0)
  Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
Collecting whitenoise>=5.3.0 (from omero-web==5.26.1.dev0)
  Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
Collecting gunicorn>=19.3 (from omero-web==5.26.1.dev0)
  Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (0.9.1.dev0)
Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (10.4.0)
Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2024.1)
Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2.10.1)
Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (24.1)
Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
  Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
  Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.19)
Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.4.4)
Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.0.0)
Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.4)
Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (6.0.1)
Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.6.5)
Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (2.32.3)
Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
  Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.3.2)
Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.7)
Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (2024.7.4)
Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
Using cached Django-4.2.14-py3-none-any.whl (8.0 MB)
Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
Using cached django_csp-3.8-py3-none-any.whl (17 kB)
Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
Building wheels for collected packages: omero-web
  Building wheel for omero-web (pyproject.toml): started
  Building wheel for omero-web (pyproject.toml): finished with status 'done'
  Created wheel for omero-web: filename=omero_web-5.26.1.dev0-py3-none-any.whl size=2765253 sha256=79753fe636f8ca038b00f8fab8c243c06c5f8d0b59c5ee8c4df3c7c8ab363b40
  Stored in directory: /home/omero/.cache/pip/wheels/39/0a/67/1d8a66c1c2b5dc08464077685312666fac69440af8767d0453
Successfully built omero-web
Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
Successfully installed Django-4.2.14 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-22.0.0 omero-web-5.26.1.dev0 sqlparse-0.5.1 typing-extensions-4.12.2 whitenoise-6.7.0
+ wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
--2024-07-24 00:49:05--  https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.110.133, 185.199.111.133, ...
Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 95703 (93K) [text/plain]
Saving to: ‘Figure_To_Pdf.py’

     0K .......... .......... .......... .......... .......... 53% 2.36M 0s
    50K .......... .......... .......... .......... ...       100% 14.1M=0.02s

2024-07-24 00:49:05 (3.85 MB/s) - ‘Figure_To_Pdf.py’ saved [95703/95703]

+ chmod 755 Figure_To_Pdf.py
+ mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
+ omero config set omero.db.name OMERO-server
+ omero config set omero.db.host pg
+ omero config set omero.db.user postgres
+ omero config set omero.data.dir /home/omero/omero-server-data
+ omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
+ omero config set omero.db.poolsize 25
+ omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
+ omero config set omero.security.trustStorePassword changeit
+ omero config set omero.mail.config true
+ omero config set omero.mail.from qa@openmicroscopy.org.uk
+ omero config set omero.mail.host smtp.dundee.ac.uk
+ omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
+ omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
+ omero certificates
OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
+ '[' false = true ']'
+ echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
+ omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
2024-07-24 00:49:41,962 [    omego.db] DEBUG            dbcommand => upgrade
2024-07-24 00:49:41,962 [    omego.db] DEBUG               dbhost => localhost
2024-07-24 00:49:41,962 [    omego.db] DEBUG               dbname => OMERO-server
2024-07-24 00:49:41,962 [    omego.db] DEBUG               dbpass => omero
2024-07-24 00:49:41,962 [    omego.db] DEBUG               dbuser => omero
2024-07-24 00:49:41,962 [    omego.db] DEBUG             rootpass => omero
2024-07-24 00:49:41,962 [    omego.db] DEBUG            serverdir => /home/omero/workspace/OMERO-server/OMERO.server
2024-07-24 00:49:41,962 [omego.extern] INFO  Executing : omero version
OMERO.py version:
OMERO.server version:
5.6.3-485-2a6e4b543f-ice36
5.19.5.dev0
2024-07-24 00:49:44,027 [omego.extern] INFO  Completed [2.065 s]
2024-07-24 00:49:44,027 [omego.extern] DEBUG Using omero CLI from omero
2024-07-24 00:49:44,027 [    omego.db] INFO  DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
2024-07-24 00:49:44,027 [omego.extern] INFO  Running [current environment]: omero config get --show-password
2024-07-24 00:49:44,027 [omego.extern] INFO  Executing : omero config get --show-password
2024-07-24 00:49:46,297 [omego.extern] INFO  Completed [2.269 s]
2024-07-24 00:49:46,297 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
2024-07-24 00:49:46,297 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
2024-07-24 00:49:46,500 [omego.extern] INFO  Completed [0.202 s]
2024-07-24 00:49:46,500 [    omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
2024-07-24 00:49:46,500 [    omego.db] INFO  psql version: psql (PostgreSQL) 16.2

2024-07-24 00:49:46,500 [omego.extern] INFO  Running [current environment]: omero config get --show-password
2024-07-24 00:49:46,500 [omego.extern] INFO  Executing : omero config get --show-password
2024-07-24 00:49:48,263 [omego.extern] INFO  Completed [1.762 s]
2024-07-24 00:49:48,263 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
2024-07-24 00:49:48,263 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
2024-07-24 00:49:48,438 [omego.extern] INFO  Completed [0.175 s]
2024-07-24 00:49:48,439 [    omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.4") at port "5432".\n'
2024-07-24 00:49:48,439 [    omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
2024-07-24 00:49:48,439 [omego.extern] INFO  Running [current environment]: omero config get --show-password
2024-07-24 00:49:48,439 [omego.extern] INFO  Executing : omero config get --show-password
2024-07-24 00:49:50,232 [omego.extern] INFO  Completed [1.793 s]
2024-07-24 00:49:50,232 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
2024-07-24 00:49:50,232 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
2024-07-24 00:49:50,342 [omego.extern] INFO  Completed [0.110 s]
2024-07-24 00:49:50,343 [    omego.db] DEBUG stdout: b'OMERO5.4|0\n'
2024-07-24 00:49:50,343 [    omego.db] INFO  Current omero db version: ('OMERO5.4', '0')
2024-07-24 00:49:50,346 [    omego.db] INFO  Database is already at OMERO5.4__0
+ export LANG=en_US.UTF-8
+ LANG=en_US.UTF-8
+ export LANGUAGE=en_US:en
+ LANGUAGE=en_US:en
+ export LC_ALL=en_US.UTF-8
+ LC_ALL=en_US.UTF-8
+ BUILD_ID=DONT_KILL_ME
+ omero admin start
No descriptor given. Using etc/grid/default.xml
Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
Waiting on startup. Use CTRL-C to exit
+ omero admin waitup
Waiting on startup. Use CTRL-C to exit
+ omero admin diagnostics

================================================================================
OMERO Diagnostics (admin)
================================================================================
        
Commands:   java -version                  11.0.22   (/usr/bin/java)
Commands:   python -V                      3.9.18    (/home/omero/workspace/OMERO-server/.venv3/bin/python)
Commands:   icegridnode --version          3.6.5     (/opt/ice-3.6.5/bin/icegridnode)
Commands:   icegridadmin --version         3.6.5     (/opt/ice-3.6.5/bin/icegridadmin)
Commands:   psql --version                 16.2      (/usr/bin/psql)
Commands:   openssl version                3.0.71    (/usr/bin/openssl)

Component:  OMERO.py                       5.19.5.dev0
Component:  OMERO.server                   5.6.3-485-2a6e4b543f-ice36

Server:     icegridnode                    running
Server:     Blitz-0                        active (pid = 22405, enabled)
Server:     Indexer-0                      activating (enabled)
Server:     OMERO.Glacier2                 active (pid = 22428, enabled)
Server:     OMERO.IceStorm                 active (pid = 22444, enabled)
Server:     Processor-0                    active (pid = 22454, enabled)
Server:     Tables-0                       active (pid = 22469, enabled)

Log dir:    /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
Log files:  Blitz-0.log                    30.5 KB       errors=0    warnings=1   
Log files:  DropBox.log                    n/a
Log files:  FileServer.log                 n/a
Log files:  Indexer-0.log                  598 B        
Log files:  MonitorServer.log              n/a
Log files:  Processor-0.log                735 B        
Log files:  Tables-0.log                   961 B        
Log files:  TestDropBox.log                n/a
Log files:  master.err                     180 B        
Log files:  master.out                     30.1 KB      
Log files:  Total size                     0.06 MB


Environment:OMERO_HOME=(unset)             
Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 
Environment:OMERO_NODE=(unset)             
Environment:OMERO_MASTER=(unset)           
Environment:OMERO_USERDIR=(unset)          
Environment:OMERO_TMPDIR=(unset)           
Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 
Environment:PYTHONPATH=(unset)             
Environment:ICE_HOME=/opt/ice-3.6.5        
Environment:LD_LIBRARY_PATH=(unset)        
Environment:DYLD_LIBRARY_PATH=(unset)      

OMERO SSL port:4064                           
OMERO TCP port:4063                           
OMERO data dir:'/home/omero/omero-server-data' Exists? True	Is writable? True
OMERO temp dir:'/home/omero/omero/tmp'        Exists? True	Is writable? True   (Size: 0)

JVM settings: Blitz-${index}                -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
JVM settings: Indexer-${index}              -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
JVM settings: PixelData-${index}            -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
JVM settings: Repository-${index}           -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions

Jar:        lib/server/formats-api.jar     Bio-Formats API	8.0.0-SNAPSHOT	24 July 2024	19e65fe70220ce11b50d7a0d4e275fc6f7f91d67
Jar:        lib/server/formats-bsd.jar     BSD Bio-Formats readers and writers	8.0.0-SNAPSHOT	24 July 2024	19e65fe70220ce11b50d7a0d4e275fc6f7f91d67
Jar:        lib/server/formats-gpl.jar     Bio-Formats library	8.0.0-SNAPSHOT	24 July 2024	19e65fe70220ce11b50d7a0d4e275fc6f7f91d67
Jar:        lib/server/ome-codecs.jar      OME Codecs	1.0.4-SNAPSHOT	24 July 2024	5f11091280226ed0a235570e10bd8227221ec197
Jar:        lib/server/ome-common.jar      OME Common Java	6.0.23-SNAPSHOT	24 July 2024	5f11091280226ed0a235570e10bd8227221ec197
Jar:        lib/server/ome-jai.jar         OME JAI	0.1.5-SNAPSHOT	24 July 2024	5f11091280226ed0a235570e10bd8227221ec197
Jar:        lib/server/ome-mdbtools.jar    MDB Tools (Java port)	5.3.4-SNAPSHOT	24 July 2024	5f11091280226ed0a235570e10bd8227221ec197
Jar:        lib/server/ome-poi.jar         OME POI	5.3.10-SNAPSHOT	24 July 2024	5f11091280226ed0a235570e10bd8227221ec197
Jar:        lib/server/ome-xml.jar         OME XML library	6.3.7-SNAPSHOT	24 July 2024	5f11091280226ed0a235570e10bd8227221ec197
Jar:        lib/server/omero-blitz.jar     jar	5.7.4-SNAPSHOT		
Jar:        lib/server/omero-common.jar    jar	5.6.7-SNAPSHOT		
Jar:        lib/server/omero-gateway.jar   jar	5.9.2-SNAPSHOT		
Jar:        lib/server/omero-model.jar     jar	5.6.15-SNAPSHOT		
Jar:        lib/server/omero-renderer.jar  jar	5.5.17-SNAPSHOT		
Jar:        lib/server/omero-romio.jar     jar	5.7.7-SNAPSHOT		
Jar:        lib/server/omero-server.jar    jar	5.6.12-SNAPSHOT		
+ deactivate
+ '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
+ PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
+ export PATH
+ unset _OLD_VIRTUAL_PATH
+ '[' -n '' ']'
+ '[' -n /bin/bash -o -n '' ']'
+ hash -r
+ '[' -n '' ']'
+ unset VIRTUAL_ENV
+ '[' '!' '' = nondestructive ']'
+ unset -f deactivate
Finished: SUCCESS