2023-07-04 13:07:39,080 UTC [1367054] INFO esmvalcore._main:495 ______________________________________________________________________ _____ ____ __ ____ __ _ _____ _ | ____/ ___|| \/ \ \ / /_ _| |_ _|__ ___ | | | _| \___ \| |\/| |\ \ / / _` | | | |/ _ \ / _ \| | | |___ ___) | | | | \ V / (_| | | | | (_) | (_) | | |_____|____/|_| |_| \_/ \__,_|_| |_|\___/ \___/|_| ______________________________________________________________________ ESMValTool - Earth System Model Evaluation Tool. http://www.esmvaltool.org CORE DEVELOPMENT TEAM AND CONTACTS: Birgit Hassler (Co-PI; DLR, Germany - birgit.hassler@dlr.de) Alistair Sellar (Co-PI; Met Office, UK - alistair.sellar@metoffice.gov.uk) Bouwe Andela (Netherlands eScience Center, The Netherlands - b.andela@esciencecenter.nl) Lee de Mora (PML, UK - ledm@pml.ac.uk) Niels Drost (Netherlands eScience Center, The Netherlands - n.drost@esciencecenter.nl) Veronika Eyring (DLR, Germany - veronika.eyring@dlr.de) Bettina Gier (UBremen, Germany - gier@uni-bremen.de) Remi Kazeroni (DLR, Germany - remi.kazeroni@dlr.de) Nikolay Koldunov (AWI, Germany - nikolay.koldunov@awi.de) Axel Lauer (DLR, Germany - axel.lauer@dlr.de) Saskia Loosveldt-Tomas (BSC, Spain - saskia.loosveldt@bsc.es) Ruth Lorenz (ETH Zurich, Switzerland - ruth.lorenz@env.ethz.ch) Benjamin Mueller (LMU, Germany - b.mueller@iggf.geo.uni-muenchen.de) Valeriu Predoi (URead, UK - valeriu.predoi@ncas.ac.uk) Mattia Righi (DLR, Germany - mattia.righi@dlr.de) Manuel Schlund (DLR, Germany - manuel.schlund@dlr.de) Breixo Solino Fernandez (DLR, Germany - breixo.solinofernandez@dlr.de) Javier Vegas-Regidor (BSC, Spain - javier.vegas@bsc.es) Klaus Zimmermann (SMHI, Sweden - klaus.zimmermann@smhi.se) For further help, please read the documentation at http://docs.esmvaltool.org. Have fun! 2023-07-04 13:07:39,080 UTC [1367054] INFO esmvalcore._main:496 Package versions 2023-07-04 13:07:39,081 UTC [1367054] INFO esmvalcore._main:497 ---------------- 2023-07-04 13:07:39,081 UTC [1367054] INFO esmvalcore._main:498 ESMValCore: 2.8.0 2023-07-04 13:07:39,081 UTC [1367054] INFO esmvalcore._main:500 ESMValTool: 2.8.0 2023-07-04 13:07:39,081 UTC [1367054] INFO esmvalcore._main:501 ---------------- 2023-07-04 13:07:39,081 UTC [1367054] INFO esmvalcore._main:502 Using config file /nird/home/tomast/.esmvaltool/config-user.yml 2023-07-04 13:07:39,081 UTC [1367054] INFO esmvalcore._main:503 Writing program log files to: /projects/NS2980K/www/tomast/esmvaltool2.8.0/recipe_ocean_arctic_bgc_20230704_130739/run/main_log.txt /projects/NS2980K/www/tomast/esmvaltool2.8.0/recipe_ocean_arctic_bgc_20230704_130739/run/main_log_debug.txt 2023-07-04 13:07:39,279 UTC [1367054] INFO esmvalcore.config._esgf_pyclient:116 Using default ESGF configuration, configuration file /nird/home/tomast/.esmvaltool/esgf-pyclient.yml not present. 2023-07-04 13:07:39,279 UTC [1367054] WARNING esmvalcore.config._esgf_pyclient:181 ESGF credentials missing, only data that is accessible without logging in will be available. See https://esgf.github.io/esgf-user-support/user_guide.html for instructions on how to create an account if you do not have one yet. Next, configure your system so esmvaltool can use your credentials. This can be done using the keyring package, or you can just enter them in /nird/home/tomast/.esmvaltool/esgf-pyclient.yml. keyring ======= First install the keyring package (requires a supported backend, see https://pypi.org/project/keyring/): $ pip install keyring Next, set your username and password by running the commands: $ keyring set ESGF hostname $ keyring set ESGF username $ keyring set ESGF password To check that you entered your credentials correctly, run: $ keyring get ESGF hostname $ keyring get ESGF username $ keyring get ESGF password configuration file ================== You can store the hostname, username, and password or your OpenID account in a plain text in the file /nird/home/tomast/.esmvaltool/esgf-pyclient.yml like this: logon: hostname: "your-hostname" username: "your-username" password: "your-password" or your can configure an interactive log in: logon: interactive: true Note that storing your password in plain text in the configuration file is less secure. On shared systems, make sure the permissions of the file are set so only you can read it, i.e. $ ls -l /nird/home/tomast/.esmvaltool/esgf-pyclient.yml shows permissions -rw-------. 2023-07-04 13:07:39,942 UTC [1367054] INFO esmvalcore._main:85 Starting the Earth System Model Evaluation Tool at time: 2023-07-04 13:07:39 UTC 2023-07-04 13:07:39,942 UTC [1367054] INFO esmvalcore._main:89 ---------------------------------------------------------------------- 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:90 RECIPE = /projects/NS2980K/home/tomast/ESMValTool/noresmvaltool/esmvaltool/new_recipes/recipe_ocean_arctic_bgc.yml 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:91 RUNDIR = /projects/NS2980K/www/tomast/esmvaltool2.8.0/recipe_ocean_arctic_bgc_20230704_130739/run 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:92 WORKDIR = /projects/NS2980K/www/tomast/esmvaltool2.8.0/recipe_ocean_arctic_bgc_20230704_130739/work 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:93 PREPROCDIR = /projects/NS2980K/www/tomast/esmvaltool2.8.0/recipe_ocean_arctic_bgc_20230704_130739/preproc 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:94 PLOTDIR = /projects/NS2980K/www/tomast/esmvaltool2.8.0/recipe_ocean_arctic_bgc_20230704_130739/plots 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:95 ---------------------------------------------------------------------- 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:98 Running tasks using at most 256 processes 2023-07-04 13:07:39,943 UTC [1367054] INFO esmvalcore._main:100 If your system hangs during execution, it may not have enough memory for keeping this number of tasks in memory. 2023-07-04 13:07:39,944 UTC [1367054] INFO esmvalcore._main:103 If you experience memory problems, try reducing 'max_parallel_tasks' in your user configuration file. 2023-07-04 13:07:39,945 UTC [1367054] DEBUG esmvalcore._recipe.check:52 Checking recipe against schema /diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_recipe/recipe_schema.yml 2023-07-04 13:07:40,286 UTC [1367054] INFO esmvalcore._task:126 Maximum memory used (estimate): 0.0 GB 2023-07-04 13:07:40,287 UTC [1367054] INFO esmvalcore._task:128 Sampled every second. It may be inaccurate if short but high spikes in memory consumption occur. 2023-07-04 13:07:40,287 UTC [1367054] ERROR esmvalcore._main:533 Program terminated abnormally, see stack trace below for more information: Traceback (most recent call last): File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_main.py", line 521, in run fire.Fire(ESMValTool()) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/fire/core.py", line 141, in Fire component_trace = _Fire(component, args, parsed_flag_args, context, name) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/fire/core.py", line 475, in _Fire component, remaining_args = _CallAndUpdateTrace( File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/fire/core.py", line 691, in _CallAndUpdateTrace component = fn(*varargs, **kwargs) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_main.py", line 408, in run self._run(recipe, session) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_main.py", line 450, in _run process_recipe(recipe_file=recipe, session=session) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_main.py", line 119, in process_recipe recipe = read_recipe_file(recipe_file, session) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_recipe/recipe.py", line 78, in read_recipe_file check.recipe_with_schema(filename) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/esmvalcore/_recipe/check.py", line 53, in recipe_with_schema recipe = yamale.make_data(filename) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/yamale/yamale.py", line 29, in make_data raw_data = readers.parse_yaml(path, parser, content=content) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/yamale/readers/yaml_reader.py", line 35, in parse_yaml return parse(f) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/yamale/readers/yaml_reader.py", line 11, in _pyyaml return list(yaml.load_all(f, Loader=Loader)) File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/yaml/__init__.py", line 93, in load_all yield loader.get_data() File "/diagnostics/esmvaltool/2.8.0/lib/python3.10/site-packages/yaml/constructor.py", line 45, in get_data return self.construct_document(self.get_node()) File "yaml/_yaml.pyx", line 665, in yaml._yaml.CParser.get_node File "yaml/_yaml.pyx", line 687, in yaml._yaml.CParser._compose_document File "yaml/_yaml.pyx", line 731, in yaml._yaml.CParser._compose_node File "yaml/_yaml.pyx", line 845, in yaml._yaml.CParser._compose_mapping_node File "yaml/_yaml.pyx", line 731, in yaml._yaml.CParser._compose_node File "yaml/_yaml.pyx", line 845, in yaml._yaml.CParser._compose_mapping_node File "yaml/_yaml.pyx", line 731, in yaml._yaml.CParser._compose_node File "yaml/_yaml.pyx", line 845, in yaml._yaml.CParser._compose_mapping_node File "yaml/_yaml.pyx", line 731, in yaml._yaml.CParser._compose_node File "yaml/_yaml.pyx", line 845, in yaml._yaml.CParser._compose_mapping_node File "yaml/_yaml.pyx", line 723, in yaml._yaml.CParser._compose_node yaml.composer.ComposerError: found duplicate anchor; first occurrence in "/projects/NS2980K/home/tomast/ESMValTool/noresmvaltool/esmvaltool/new_recipes/recipe_ocean_arctic_bgc.yml", line 132, column 33 second occurrence in "/projects/NS2980K/home/tomast/ESMValTool/noresmvaltool/esmvaltool/new_recipes/recipe_ocean_arctic_bgc.yml", line 160, column 33 2023-07-04 13:07:40,329 UTC [1367054] INFO esmvalcore._main:537 If you have a question or need help, please start a new discussion on https://github.com/ESMValGroup/ESMValTool/discussions If you suspect this is a bug, please open an issue on https://github.com/ESMValGroup/ESMValTool/issues To make it easier to find out what the problem is, please consider attaching the files run/recipe_*.yml and run/main_log_debug.txt from the output directory.