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ac6c100c6b
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Fixed venv pkglist (close #21).
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2024-08-05 18:22:38 +02:00 |
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ab72ee398c
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output_analysis now takes multiple files and not just a single directory as argument for the analysis input (close #36).
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2024-08-05 17:19:45 +02:00 |
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cd9a9000d5
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Adding a column with the name of the artifact in each row of the package list (close #37).
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2024-08-05 17:04:42 +02:00 |
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ea6d78dac2
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Switched from an empty hash to indicate download failure to a hash equal to "-1". Fixed a bug where the cache folder would not be removed in case artifact download failed.
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2024-08-05 16:29:07 +02:00 |
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Quentin Guilloteau
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199d1dc282
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minor improvement to protocol
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2024-08-02 17:49:55 +02:00 |
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Quentin Guilloteau
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43ceead6b0
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Continue writing the protocol
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2024-08-02 11:04:30 +02:00 |
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Quentin Guilloteau
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a24091b390
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start writing protocol
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2024-08-01 17:49:41 +02:00 |
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114d0e5816
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Added support for other virtualization techs in the Nickel contract (close #28). Added Nix dependency for Snakemake diagram generation.
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2024-07-30 18:06:16 +02:00 |
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ff2fc2d365
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Added version number to the Nickel contracts and artifacts (close #27).
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2024-07-29 16:39:30 +02:00 |
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14ca1da160
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Now handling the script's own crashes: saving to log and build status file (close #25).
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2024-07-29 15:17:22 +02:00 |
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e8b25b74a7
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Added build status analysis. Now logging build status even if build is successful, to make analysis easier (as mentionned in #26). Added a new error type.
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2024-07-26 19:00:25 +02:00 |
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4db323fb03
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Implemented artifact hash analysis. Switched to a table of tables instead of a single table to be able to identify multiple artifacts for the artifact analysis.
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2024-07-26 17:01:59 +02:00 |
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f25f5e356d
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Handling the case where artifact/misc packages cannot be downloaded.
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2024-07-26 13:28:26 +02:00 |
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8574c5e238
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Softenv analysis written.
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2024-07-26 12:58:00 +02:00 |
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3c648c1a09
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Written skeleton for output analysis (#26). Renamed some arguments of ECG.
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2024-07-25 18:03:14 +02:00 |
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e118cf3da1
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Added the convention on config file name on the doc.
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2024-07-25 09:32:52 +02:00 |
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1d925ca364
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Now using the name of the config file (without ext) as image name, meaning the name of the config file should comply with Docker image naming rules (should be the case).
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2024-07-25 09:27:30 +02:00 |
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48d3da9c7d
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Removed image name from the config file, now generated from the artifact URL (close #24). Fixed the "--no-cache" option when using Docker cache.
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2024-07-24 18:58:50 +02:00 |
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d2768d5373
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Added initial support for Python venvs, close #21. Disabled the Docker build cache by default, and added an option to reenable it, close #23. Removed conditions on the existance of git_packages and misc_packages, because the workflow enforces their existance with the Nickel artifact contract.
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2024-07-24 18:05:31 +02:00 |
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aab563fbfe
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Fixed shi_welder (wrong path to Git repos).
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2024-07-24 16:17:11 +02:00 |
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8687bb03f4
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Switching from pip freeze to pip list because of inconsistent output mentionned in #18, close #22. Adding albab_k9db config.
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2024-07-24 11:34:05 +02:00 |
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4329e333ea
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Added shi_welder, renamed OAR timeout error.
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2024-07-24 10:13:53 +02:00 |
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cc50349cf5
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Almost solved the removing of bash login messages from outputs (#18) but still needs some work ("dace" pip package incorrectly displayed for deinsum).
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2024-07-23 21:04:34 +02:00 |
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5ba63ad50e
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Fixed merge.
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2024-07-23 17:27:10 +02:00 |
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687b777912
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Merge remote-tracking branch 'origin/workflow_config'
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2024-07-23 17:26:03 +02:00 |
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35f8b4c369
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Merge branch 'main' of https://forge.chapril.org/GuilloteauQ/study-docker-repro-longevity
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2024-07-23 09:38:24 +02:00 |
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557f766a02
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Removing global variables, closing #19.
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2024-07-23 09:38:03 +02:00 |
|
Quentin Guilloteau
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944b1bf6f9
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checkpoint in case of reaching walltime
|
2024-07-21 17:32:04 +02:00 |
|
Quentin Guilloteau
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ef257e6026
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add prefix to config
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2024-07-21 16:14:58 +02:00 |
|
Quentin Guilloteau
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566eb778f2
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fix execution on grid5000 from namespace
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2024-07-21 16:13:52 +02:00 |
|
Quentin Guilloteau
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318955865c
|
typo
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2024-07-21 16:12:40 +02:00 |
|
Quentin Guilloteau
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dd6eb9bcbb
|
now using tmp dir to decompress the artifact
|
2024-07-21 16:11:55 +02:00 |
|
Quentin Guilloteau
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8ed548c435
|
first try for g5k execution
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2024-07-20 15:41:56 +02:00 |
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cc605943a9
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Added a comment section for artifacts configuration. Moved hints to the Nickel contract.
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2024-07-19 17:05:46 +02:00 |
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Quentin Guilloteau
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d7749369b4
|
move artifacts_nickel and artifacts_json to artifacts/nickel and artifacts/json
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2024-07-19 16:38:18 +02:00 |
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Quentin Guilloteau
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9769f6b533
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Add config for snakemake
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2024-07-19 16:33:27 +02:00 |
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9a29c526fb
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Small doc fixes.
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2024-07-19 16:23:39 +02:00 |
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a7bf9cee94
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Written a doc for the output. Removed the "type" attribute from the Nickel contract, closing #17.
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2024-07-19 16:18:49 +02:00 |
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1861f44f1e
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Removed the "type" attribute in the misc_package description.
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2024-07-19 15:28:58 +02:00 |
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cb98727554
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Added artifacts_json to git ignore and deleting, closing #15. Deleted old YAML files. Added hints on the config template.
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2024-07-19 15:23:00 +02:00 |
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57ff34e8b9
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Written Nickel + JSON artifact config files from their YAML version. Handling unknown errors during image building.
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2024-07-18 17:56:57 +02:00 |
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d791064183
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Added Nickel constraint on values.
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2024-07-17 14:56:38 +02:00 |
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6897091c0d
|
Modified README according to changes.
|
2024-07-16 17:58:13 +02:00 |
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75056727e5
|
Fixing quotes for formatted strings.
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2024-07-16 17:53:34 +02:00 |
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f2cfceffb0
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When no cache dir is specified, cache is disabled.
|
2024-07-16 17:50:55 +02:00 |
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1aaa77cba3
|
Fixed Nickel contract and check files. Fixed input/output files in Snakefile.
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2024-07-16 17:35:09 +02:00 |
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69e447ab0a
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Fixed Nickel config files. Added artifact hash log on Snakefile + modified some variables names. Switched from 'tgz' to 'tar' for archive type.
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2024-07-16 16:47:17 +02:00 |
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842f9d32a7
|
Added license.
|
2024-07-16 16:04:02 +02:00 |
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83a6930593
|
Merge pull request 'integrate nickel in workflow' (#11) from nickel_workflow into main
Reviewed-on: #11
|
2024-07-16 15:37:13 +02:00 |
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82af4bd521
|
Written a doc. Changing the name of the variables related to the hash log.
|
2024-07-16 15:34:15 +02:00 |
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