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  • Joined on 2021-10-18
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-22 18:01:11 +02:00
ce826c35a6 Fixed aggregation by separating it into multiple rules. Fixed calls to get_analysis_dates. Fixed plot headers and plot script in plotting rules, which are now working (close #44). Rule all has been modified according to these changes. Removed global analysis rule.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-21 21:19:40 +02:00
2d5b043f8f Fixed analysis and aggregate rules to get all ECG/analysis outputs for all possible dates. Written a function to get all available outputs for this purpose. Defined variables for arrays used multiple times. Simplified aggregate rule, but needs fix, because cannot have a list of shell commands apparently. Modified plotting rules according to those changes.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-21 17:07:29 +02:00
e3d01ae34e Updated doc with plotting script's changes.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-21 15:35:04 +02:00
3eba87d47a Added an option to set the output path of the plotting script. Changed name and order of the options of the plotting script.
antux18 commented on issue GuilloteauQ/study-docker-repro-longevity#33 2024-08-21 14:18:23 +02:00
Make the blacklist not permanent

This may false the results of the analysis... but blacklisting also would false the results of the analysis...

antux18 pushed to master at Wantoo/UniSquat_Python 2024-08-21 12:28:07 +02:00
404bef0ca2 Mise à jour vers le calendrier 2024-2025.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-20 18:59:48 +02:00
52c629b9b8 Comments on Snakemake config files.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-20 18:58:19 +02:00
9c6fe6700b The updating of the blacklist has been reworked to be functional: it is not relying on a symlink anymore (this symlink has been removed). Instead, the last blacklist is fetched by the get_artifacts_to_build function. Modified Snakefile according to the change in the name of a build status. Created a default config file for Snakemake, allowing custom configurations to be written to "config.yaml".
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-20 18:49:49 +02:00
513b21754c Changed build status "package_unavailable" to "package_install_failed" to cover more errors. Added an error message for this status. Outputs of ECG are now always created at the beginning to avoid issues with Snakemake (maybe not a good idea).
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-20 17:46:03 +02:00
72a638cd17 Added conference date to Nickel contract + artifacts (close #29). Changes localhost to 127.0.0.1 in test artifact, because localhost doesn't work in a Nix environment.
antux18 closed issue GuilloteauQ/study-docker-repro-longevity#29 2024-08-20 17:46:03 +02:00
add a field in the nickel for the date of the conference
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-19 19:09:58 +02:00
37176178f1 Restored blacklist.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-19 19:03:17 +02:00
0a8b0c85c6 Fixed analysis part in Snakemake again, needs testing. Moved test and template artifacts back to parent folder. Changes analysis output dir.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-19 16:38:11 +02:00
ece5749b7a Fixed analysis in Snakefile. Started working on plotting part.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-19 15:22:28 +02:00
f6f20cb0d6 Integrated the whole analysis part to the Snakefile, but needs testing (#44).
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-19 15:00:29 +02:00
e943be4efe Integrated softenv analysis to workflow. Changed input and output cmd options in analysis scripts to take multiple files at once. Moved test and template artifacts in an excluded folder.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-16 17:41:41 +02:00
1e5dd77cd8 Working on the integration of the analysis to the snakemake workflow.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-15 12:32:55 +02:00
744b3b0d35 Added doc for running the Snakemake workflow.
antux18 pushed to main at GuilloteauQ/study-docker-repro-longevity 2024-08-15 12:24:22 +02:00
0bbed9d0f5 Adding missing changes from the previous commit because I wasn't in the root folder...
cb1a62217c The handling of the output of ECG and of ECG's own errors has been transfered to a new wrapper script that calls ECG. Now, ECG doesn't take an output log file as parameter, rather just write everything to the terminal. It is then retrieved by the wrapper scripts that writes the ouput to the given output log file, and logs any script crash. README has been updated according to these changes, and the verbose and log path options of ECG have been removed. Close #25.
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antux18 closed issue GuilloteauQ/study-docker-repro-longevity#25 2024-08-15 12:24:21 +02:00
Handling Python related errors in the buildstatus file