28 skills · sorted by relevance
Track data flow between function parameters, calls, and arguments using taint analysis. Use when detecting vulnerabilities like command injection, buffer overflows, or tracing user input to dangerous functions.
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Use when choosing .NET concurrency patterns for async I/O, queues, pipelines, or thread safety. Keywords: async/await, channels, dataflow, Rx, lock contention, producer consumer, parallel processing.
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Ensure designs define data flow, state ownership, consistency boundaries, and cross-boundary writes to prevent drift and incidents.
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Authors reproducible bioinformatics pipelines with Snakemake - rules wired by output-file pattern, wildcards and expand() for sample fan-out, checkpoints for runtime-unknown outputs, resource/retry escalation, and conda/container software deployment on HPC and cloud. Use when deciding rule-based (Snakemake) vs channel/dataflow (Nextflow) authoring; wiring rules by OUTPUT-file pattern rather than imperative order; using wildcards + expand() for sample fan-out and constraining them to stop silent mis-routing; adding checkpoints when the set of outputs is unknown until a step runs (dynamic DAG); diagnosing why a job reran (or did not) under the mtime-plus-provenance trigger set; escalating memory on retry for OOM-killed jobs; and porting a Snakemake 7 `--cluster`/remote-provider command to the Snakemake 8+ executor-plugin and storage-plugin model (snakemake-executor-plugin-slurm) with `--software-deployment-method`.
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