2025.02

• Replaced os.rename for shutil.move in the code to fix #3455.
• Via qp-spades, replaced the legacy spades command for cloudSPAdes for TellSeq.
• FASTA_preprocessed within qtp-sequencing now allows for results to be named using their sample-name, extra from run-prefix.
• Remove SynDNA inserts & plasmid reads superseded Remove SynDNA reads, which now removes SynDna inserts and plasmids.
• update_resource_allocation_redis now relies on using equations stored in the database vs. hardcoded; thank you @Gossty!
• SPP: Updated prep-info file generation to identify and report filtered fastq files that could not be matched to a sample-id instead of silently ignoring them.
• SPP: Removed legacy test code and example files for amplicon processing. Some other tests updated and repurposed.
• SPP: jobs are now easier to restart.
• SPP: MultiQC report generation is now a separate slurm job & use jinja2 templates; also FastQC use jinja2 templates.