8 Commits

Author	SHA1	Message	Date
Quentin Guilloteau	a62d338bd0	moving some config around	2024-08-29 12:58:50 +02:00
antux18	97447e59a1	The results of the get_analysis_dates function being used as inputs in some Snakemake rules, this causes Snakemake to overwrite older analysis, probably because the files used to generate these older analysis have been modified. To avoid overwriting older analysis, we only specify today's analysis in the input, and use a bash wrapper script to both fetch the older analysis by itself (by giving it the folder where to look), and run the analysis with the fetched files. So I removed get_analysis_dates and replaced it with the wrapper script every time it was used. ... I also removed the older unfinished analysis wrapper that I forgot it existed...	2024-08-23 16:14:46 +02:00
antux18	f2cf7e3498	Handling of the case where no artifact configuration files have been found, or they have all been blacklisted.	2024-08-22 18:37:44 +02:00
antux18	b8212061fd	The date of the day is now always added to the output of get_analysis_dates, because we obviously want to generate the analysis of the day, even if there are older analysis in the folder already...	2024-08-22 18:21:00 +02:00
antux18	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. ... List of artifacts to build now generated using all available blacklists, not just the last one (ensures that we don't miss some blacklisted artifacts). Fixed update blacklist rule, because of grep's output. Removed default blacklist.	2024-08-22 17:55:05 +02:00
antux18	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.	2024-08-21 21:15:09 +02:00
antux18	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".	2024-08-20 18:55:12 +02:00
Quentin Guilloteau	28126f8b3e	basic workflow for ecg	2024-07-11 15:17:16 +02:00