Coding & Dev Tools

ariffazil Skill

Constitutional governance wrapper — enforces arifOS F1-F13 floors on all operations. Use when auditing actions against the constitutional kernel, explaining floor violations, or checking 888_HOLD requirements.

ariffazil Bundle

Policy defining when Hermes breaks schedule to send real-time news alerts outside the twice-daily brief

ariffazil Bundle

Query arifOS VAULT999 and memory instead of Hermes native memory when context involves sovereign decisions, long-term projects, or constitutional state. Falls back to native memory for preferences and session-scoped facts.

ariffazil Bundle

4-phase root cause debugging: understand bugs before fixing.

ariffazil Bundle

TREE777 SCAR — Telegram bot token isolation enforcement. Prevent two agents from sharing the same Telegram bot token. Triggers on any detection of shared tokens, forces verification before continuing.

ariffazil Bundle

CANONICAL VERSION: arifos-act v3.0.0 at /root/AAA/skills/arifos-act/SKILL.md This file is kept for OpenCode system instruction backward compatibility. The constitutional reflex arc: ART (pre-kernel) → Kernel (F1-F13) → ACT (post-kernel execution).

oimiragieo Bundle

Sequential thinking and structured problem solving. Break down complex problems into steps with revision and branching capabilities. Use for multi-step analysis, planning, and hypothesis verification.

oimiragieo Bundle

Verifies repository baseline test passing state and available memory/GPU resources to ensure safe mission execution.

oimiragieo Bundle

Defines general rules for tsconfig.json. It suggest using strict TypeScript checks

oimiragieo Bundle

Create isolated development workspaces with safety verification. Use when needing parallel development branches.

oimiragieo Bundle

Use when you want to improve response quality through meta-cognitive reasoning. Applies 15+ reasoning methods to reconsider and refine initial outputs.

gptomics Bundle

Perform pairwise sequence alignment using Biopython Bio.Align.PairwiseAligner. Use when comparing two sequences, finding optimal alignments, scoring similarity, and identifying local or global matches between DNA, RNA, or protein sequences.

gptomics Bundle

Resolves GWAS associations to candidate causal variants and credible sets via SuSiE, susie_rss, FINEMAP, CAVIAR, DAP-G, PAINTOR, PolyFun, SuSiEx, MultiSuSiE, and FOCUS. Use when narrowing a GWAS lead SNP to a 95 percent credible set, choosing between in-sample and reference LD, calibrating non-sparse loci with SuSiE-inf or FINEMAP-inf, integrating functional priors via PolyFun, fine-mapping across ancestries with SuSiEx, diagnosing LD mismatch via estimate_s_rss and kriging_rss, handling HLA or long-range LD, or feeding credible sets into coloc.susie for colocalization.

gptomics Bundle

Discover RBP binding motifs from CLIP-seq peaks or single-nucleotide crosslink sites using HOMER, MEME/STREME, kpLogo, mCross (CL-position-registered motifs), PEKA (positional k-mer enrichment), RBPamp (affinity), and RNA Bind-n-Seq (RBNS) cross-validation. Use when characterizing RBP sequence specificity, registering motifs to crosslink positions, validating in vivo CLIP motifs against in vitro RBNS Kd, reconciling motif disagreements across tools, or correcting for the uracil crosslinking bias that contaminates raw CLIP motif logos.

gptomics Bundle

Profiles RNA-binding protein targets without antibody or UV crosslinking using STAMP (APOBEC1-RBP fusion, C-to-U editing), scSTAMP (single-cell), TRIBE/HyperTRIBE (ADAR-RBP, A-to-I editing), DART-seq (APOBEC1-YTH for m6A), or Bullseye/SAILOR edit-site detection pipelines. Use when antibody is unavailable or specificity is doubtful, when single-cell RBP profiling is needed (scSTAMP), or when in vivo RBP profiling without UV is preferred.

gptomics Bundle

Designs and analyzes stable-isotope-resolved metabolomics (SIRM / isotope tracing / fluxomics) experiments that measure metabolic ACTIVITY via 13C/15N/2H tracers, distinct from steady-state pool profiling. Covers tracer choice, isotopologue vs isotopomer, mass-isotopomer distributions (MID), fractional enrichment, the mandatory natural-abundance + tracer-purity correction (IsoCor, AccuCor), and the metabolic/isotopic steady-state vs non-stationary (INST-MFA) distinction. Use when feeding a labeled tracer and interpreting labeling patterns, correcting raw isotopologue intensities, computing or plotting an MID, or deciding tracing vs abundance profiling. For absolute pool concentration and MRM mechanics see metabolomics/targeted-analysis; for constraint-based genome-scale flux (FBA, not empirical tracing) see systems-biology/flux-balance-analysis; for feature detection see metabolomics/xcms-preprocessing; for pathway enrichment that ignores the pool-vs-flux caveat see metabolomics/pathway-mapping.

gptomics Bundle

Aligns DNA short reads (paired- or single-end) to a reference genome with bwa-mem2, the maintained successor to BWA-MEM, for WGS/WES and germline/somatic variant-calling pipelines; covers index build, read-group injection, the collate/fixmate/sort/markdup ordering, soft-clipping for SV split reads, ALT/decoy-aware mapping on GRCh38, -K determinism, and streaming straight to a sorted BAM. Use when mapping DNA short reads to a reference for variant calling, coverage, ChIP/ATAC (alongside bowtie2-alignment), or SV detection. RNA-seq spliced alignment is star-alignment/hisat2-alignment; BAM sort/dedup/stats, the QC gate, and the cross-tool MAPQ scale are alignment-files; read trimming is read-qc; counting reads over features is rna-quantification.

gptomics Bundle

Read, write, and index compressed sequence files (gzip, bzip2, xz, BGZF) with Biopython and bgzip/samtools. Use when working with .gz, .bz2, or .bgz sequence files, when random access into a compressed FASTA/FASTQ is needed, or when SeqIO.index/faidx/tabix rejects a plain .gz. Covers the BGZF-vs-gzip seekability asymmetry, the 'rt'-not-'rb' handle trap, virtual offsets, and gzip-to-BGZF conversion.

gptomics Bundle

Filter and select sequences by criteria (length, ID, GC content, N content, motifs, patterns, description) using Biopython, streaming so large files never load into RAM. Use when subsetting a FASTA/FASTQ file, removing unwanted or low-quality records, or selecting records by specific criteria. Use the paired-end-fastq skill instead whenever the input is paired R1/R2 reads.

gptomics Bundle

Handle paired-end FASTQ files (R1/R2) using Biopython while keeping mates synchronized. Use when working with Illumina paired reads, synchronizing pairs, filtering both mates together with orphan routing, interleaving/deinterleaving, or matching mates by read name.

sboghossian-mini-claude-for-legal Skill

Use when drafting a formal demand letter (letter before action / mise en demeure) requiring payment, performance, cessation of conduct, or retraction. P0 litigation skill covering required inputs, structure, tone, and the jurisdiction-specific service and formality requirements for LB (notarial/bailiff service), KSA (licensed lawyer, bailiff), UAE (notarized via Notary Public), and common-law jurisdictions. The letter must be precise, factual, and function as admissible court evidence.

sboghossian-mini-claude-for-legal Skill

Use when drafting an Intellectual Property Assignment Agreement transferring ownership of a portfolio of IP rights (patents, trademarks, copyright, designs, trade secrets, software) from an assignor to an assignee. Covers required inputs, document structure including the critical further-assurances and power-of-attorney provisions, moral rights handling across civil-law and common-law jurisdictions (MENA, FR, UK, US), jurisdiction-by-jurisdiction registry perfection obligations, and common use cases including M&A IP cleanup, founder-to-company, and consultant-to-client transfers.

sboghossian-mini-claude-for-legal Skill

Use when drafting a joint venture agreement for two or more parties pursuing a shared business purpose, whether as a contractual cooperation or a newly incorporated entity (NewCo). Covers governance, contributions, profit sharing, reserved matters, deadlock resolution, exit mechanisms, and critical MENA-specific issues such as foreign-ownership restrictions and commercial agency law in UAE, KSA, and Lebanon. Triggers on "joint venture", "jv agreement", "joint company", or "shared enterprise" requests.

sboghossian-mini-claude-for-legal Skill

Use when drafting or reviewing a Know Your Customer (KYC) procedure for a financial institution, fintech, law firm, or regulated business operating under AML/CFT obligations. Covers the full customer due diligence lifecycle — identification, verification, beneficial ownership, risk classification, sanctions screening, PEP checks, and periodic refresh — with specific attention to MENA regulatory frameworks (UAE CBUAE, KSA SAMA, Lebanon SIC, DIFC/ADGM, FATF). Triggers on "kyc", "customer due diligence", "cdd", "aml procedure", or "onboarding compliance" requests.

sboghossian-mini-claude-for-legal Skill

Use when drafting a formal legal opinion — a written analysis by counsel on a specific legal question, typically relied upon by a counterparty or third party (e.g., at a transaction closing, for regulatory filing, or for financing). Covers standard structure (assumptions, qualifications, opinions), IRAC methodology for each opinion paragraph, transactional vs advisory opinions, and the critical malpractice-avoidance rules (scope limitations, reliance restrictions). Triggers on "legal opinion", "counsel's opinion", "closing opinion", "opinion letter", or "memorandum of law" when formality and reliance are in scope.

sboghossian-mini-claude-for-legal Skill

Use when drafting a variant of a standard Statement of Work — specifically a time-and-materials SOW, a fixed-fee SOW, an outcome-based (KPI-tied) SOW, or a hybrid fee structure. Builds on the base SOW framework with variant-specific clauses for fee mechanics, cap provisions, KPI definitions, and mixed-fee allocation. Use alongside the base draft-sow skill; this skill provides the variant-specific additions.

sboghossian-mini-claude-for-legal Skill

Use when drafting a DMCA takedown notice (US 17 USC 512) or an equivalent notice-and-action request under EU DSA Article 16, UK copyright law, or MENA platform procedures. Covers the statutory elements for a valid DMCA notice, the counter-notice procedure, and equivalents for non-US infringing content. Flags that trademark infringement requires a separate instrument (cease-and-desist or platform trademark form) and that repeat-infringement subpoenas require court process.

sboghossian-mini-claude-for-legal Skill

Use when drafting a non-binding term sheet for a priced VC investment round (Seed, Series A, or later). Covers all standard VC term sheet provisions including share type, pre-money/post-money mechanics, option pool, anti-dilution, liquidation preferences, protective provisions, board composition, ROFR/co-sale/drag, information rights, founder vesting, and the no-shop. Marks binding vs non-binding sections explicitly. Notes that DIFC and ADGM are increasingly the preferred jurisdictions for MENA tech VC rounds in preference to onshore UAE or KSA.

sboghossian-mini-claude-for-legal Skill

Use when the platform needs to surface curated legal and business news from MENA jurisdictions (UAE, KSA, Lebanon, Egypt, Qatar, Bahrain, Kuwait, Oman, plus DIFC and ADGM) into the user's feed. Aggregates news from regional legal publications, law firm alerts, and business media, filtered by practice area and jurisdiction. The primary awareness feed for MENA-focused practitioners who need to track the regional legal and regulatory environment without scanning multiple sources manually.

sboghossian-mini-claude-for-legal Skill

Use when a matter involves employment law obligations, contracts, termination, or disputes for entities registered in the Abu Dhabi Global Market (ADGM). Covers the ADGM Employment Regulations 2024 (common-law framework), ADGM Workplace Savings Plan (ADGM WSP replacing end-of-service gratuity), annual leave, notice, termination rights, and non-compete rules. Distinct from UAE onshore Federal Decree-Law 33/2021 — ADGM entities use only the ADGM regime. Triggers on ADGM employment contract, ADGM dismissal, ADGM gratuity, ADGM HR questions.

sboghossian-mini-claude-for-legal Skill

Use when a matter involves employment law obligations, contracts, termination, or disputes for entities registered in the Dubai International Financial Centre (DIFC). Covers DIFC Employment Law 4/2021, the DIFC Employee Workplace Savings (DEWS) scheme replacing end-of-service gratuity, annual leave, notice, unfair dismissal protection, non-compete enforcement, and DIFC Courts dispute procedure. Distinct from UAE onshore Federal Decree-Law 33/2021 — DIFC entities use only the DIFC regime. Triggers on DIFC employment contract, DIFC dismissal, DEWS scheme, DIFC non-compete questions.

sboghossian-mini-claude-for-legal Skill

Use when the user is a paralegal, legal administrator, or legal secretary who needs procedural, forms-first, checklist-driven assistance rather than legal analysis. This persona prioritizes filing requirements, deadlines, document checklists, and step-by-step instructions. Applies across all MENA and common-law jurisdictions; defers legal analysis to the supervising attorney.

sboghossian-mini-claude-for-legal Skill

Use when evaluating market entry sequencing, TAM/SAM/SOM analysis for investor materials, or expansion planning into adjacent legal markets. Covers the MENA legal AI addressable market (estimated ~$500M ARR by 2030), HAQQ's targeted 30–40% share thesis, and adjacent francophone Africa and MENA-diaspora vectors. Internal use only.

ariffazil Skill

Compress large log files, session traces, and tool outputs while preserving critical coordinates, depth markers, well references, seismic positions, and decision boundaries. Use when log output exceeds context window, when entired terminal histories must be summarized without losing evidence anchors, or before archiving session traces to VAULT999.

oimiragieo Bundle

Semantic code search using Phase 1 vector embeddings and Phase 2 hybrid search.

oimiragieo Bundle

Programmatic code style validation using AST analysis. Complements (not replaces) code-style rules by providing automated checking and instant feedback.