2024.07

Deployed on July 16th, 2024

• On June 14th, 2024 we modified the SPP to use "fastp & minimap2 against GRCh38.p14 + Phi X 174 + T2T-CHM13v2.0, then Movi against GRCh38.p14, T2T-CHM13v2.0 + Human Pangenome Reference Consortium release 2023" to filter human-reads.
• Full refactor of the DB patching system to make sure that a new production deployment has a fully empty database.
• Fully removed Qiimp from Qiita.
• Users can now add ORCID, ResearchGate and/or GoogleScholar information to their profile and the creation (registration) timestamp is kept in the database. Thank you @jlab.
• Admins can now track and purge non-confirmed users from the database via the GUI (/admin/purge_users/). Thank you @jlab.
• Added qiita.slurm_resource_allocations to store general job resource usage, which can be populated by qiita_db.util.update_resource_allocation_table.
• Added qiita_db.util.resource_allocation_plot to generate different models to allocate resources from a given software command based on previous jobs, thank you @Gossty !
• The stats page map can be centered via the configuration file; additionally, the Help and Admin emails are defined also via the configuration files, thank you @jlab !
• Sequel IIe, Revio, and Onso are now valid instruments for the PacBio_SMRT platform.
• Added current_human_filtering to the prep-information and human_reads_filter_method to the artifact to keep track of the method that it was used to human reads filter the raw artifact and know if it's up to date with what is expected via the best practices.
• Added reprocess_job_id to the prep-information so we keep track if a preparation has been reprocessed with another job.
• Other general fixes, like #3385, #3397, #3399, #3400, #3409, #3410.