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Merge coeus updates#2

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lukemartinlogan merged 116 commits intolukemartinlogan:masterlukemartinlogan/coeus-adapter:masterfrom grc-iit:mastergrc-iit/coeus-adapter:masterCopy head branch name to clipboardOct 2, 2023

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Commits

Commits on Jun 1, 2023

• Added hermes this includes

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• Changes to the docker container now that software is install in /usr and we dont need the profile file

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Commits on Jun 2, 2023

• Small changes to make it work with hermes

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Commits on Jun 5, 2023

• Changes to the CMakes to accept hermes and to clean some of the dependency chains

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• Claning some of the previous changes

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• Merge pull request #21 from lukemartinlogan/master

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• Changes to the gitignore to not account for the dual build paths of docker and remote

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• Changes to the CMakes to accept hermes and to clean some of the dependency chains

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• Claning some of the previous changes

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• Added hermes this includes

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• Changes to the docker container now that software is install in /usr and we dont need the profile file

  JaimeCernuda

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• Small changes to make it work with hermes

  JaimeCernuda

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• Changes to the CMakes to accept hermes and to clean some of the dependency chains

  JaimeCernuda

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• Changes to the make and the dopckerfile to better support each other

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Commits on Jun 6, 2023

• Final changes to adapt to the Hermes 1.0 bug fix nad changes to Hermes using a config file

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• Merge remote-tracking branch 'origin/2-add-hermes-to-the-cmake' into 2-add-hermes-to-the-cmake

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• Remove the docker-build file added by accident

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• Added build folders to gitignore to avoid the same problem in the future

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• Merge pull request #22 from scs-lab/2-add-hermes-to-the-cmake

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Commits on Jun 8, 2023

• 23 add GitHub actions (#25)

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Commits on Jun 10, 2023

• Inital test configuration

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• Inital test configuration

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• Test py files uploaded

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Commits on Jun 11, 2023

• Update project name when adding testing directory

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• Change node Exec

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• Enable testing

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• Coeus updates commented

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Commits on Jun 12, 2023

• Move from directory

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• Enable testing removed

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Commits on Jun 13, 2023

• Update CMakeLists.txt

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• Update CMakeLists.txt

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• Update CMakeLists.txt

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• Update CMakeLists.txt

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• Update run_test.py

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• jarvis-util added

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• Remove address sanitizer

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• Script adapted to COEUS

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Commits on Jun 14, 2023

• Update run_test.py

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• Removed test_types

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• Removed unnecessary test_types

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Commits on Jun 15, 2023

• Updated files

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• Get and Put functions update

  adiazleanteferreiro

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• Removed finalize_hermes and hermes_deamon directories with executable

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• Updates

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• Removed hermes interceptor paths

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• Update #!/usr/bin/python3

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• Update shebang

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Commits on Jun 16, 2023

• Update import

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• Added python3 command

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• Change name to test_basic

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• Added LD_LIBRARY_PATH

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• def test_basic

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• Update image

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• Merge pull request #27 from scs-lab/test-py-branch

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• Update docker testing (#30)

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Commits on Jun 20, 2023

• Integrate hermes branch (#31)

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Commits on Sep 7, 2023

• Gray scott jaime (#36)

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• Updated gitignore

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• Removing build remote from git

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Commits on Sep 14, 2023

• Addin YAML

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• clearing code base

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Commits on Sep 28, 2023

• Updated jarvis for hermes 1.1

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Commits on Sep 30, 2023

• Updated to hermes 1.1

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• Updated to hermes 1.1

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• refreshed jarvis-cd

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• setting up jarvis-cd evals

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• setting up jarvis-cd evals

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Commits on Oct 1, 2023

• added jarvis-cd repo and reworked evals to suppor it

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• added jarvis-cd repo

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• Changed class narmed in the jarvis repo to be consistent with jarvis requirments

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• Moved everything on the jarvis repo to maintain consensus with jarcis policies

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• Partial update on the use of lower on the jarvis packages

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• Update gray scott package to actually create the json file

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• Fix variable name on the clean of gray scott

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• Gray scott now also cleans the checkpoint_output

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• Small name change to the postprocessing out_filename

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• adios.xml was being copied to the wrong location

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• working directory pointed to a file on the postprcessing

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• Chanmged the adios2.xml of the postprocesign to bp5

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• Changed how grey scott cleans itself

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Commits on Oct 2, 2023

• Changes to the lower on the other packages

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• Changes to the storage location of the adios2.xml file for some of the packages

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• Fixing the cleaning phases of some packages

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• Renaming to out_file

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• Changes to Io comp to debug

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• Changes to Io comp read faces, inquire must go inside the step

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• Reversing the time calculations

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• remove debugging and bettter output

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• return of some debugging

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• changes to the get, trying to avoid issues

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• Cleaning up the producer and consumer from some of the issues discovered in IO_comp

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• missed son lowers on the producer/consumer pkg

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• Changes to the consumer top have the correct engine name for adios -> bp5

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• Some debugging for oeprators

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• Changed the xml to bp5 not bpfile

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• Guarded the diff calculation

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• Comment the diff which seems like the root of errors

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• more debugging

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• more debugging

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• removed debugging on produicer

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• prit metadata adios

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• prit metadata adios

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• process start writting at rank,0 not size,0

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• print metadata properly

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• change to split comm

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• revert the mpi changes

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• revert the mpi changes

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• enhancerd the metadata to store ohn the benchmarks

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• setting up config on the config of metadata

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• changes to the lower on metadata

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• Improved timing output for metadata

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• changes to the lower on metadata

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• changes to the config of metadata

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• changes to the config of metadata

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• wrong names where used for files on mdm

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• Forgot to clean the old printing code on mdm empress

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