Software health reportschema 0.34.0 · metrics 2.10.0 · 2026-10-18 18:53 UTC

genome-nexus / genome-nexus-cli

💻 Command line interface for Genome Nexus 🧬

TypeScriptNo license detected★ 0 stars⑂ 5 forkssince Oct 2019View on GitHub ↗

KindCommand-line toolLibraryhow this is determined

#cancer-genomics #maf-annotation #vcf #variant-annotation #json #nodejs #typescript

genome-nexus/genome-nexus-cli holds a health index of 20 out of 100, placing it in the At Risk band. It scores highest on Engineering Quality (59/100) and lowest on Community & Adoption (18/100). It was last updated 1268 days ago. A single contributor accounts for most of its recent work.

overall / 100

At Risk

Software health index

Metrics are grouped into weighted categories on one standardized 1–100 scale. Overall starts as their weighted mean, calibrated against the distribution of the public record so bands carry percentile meaning; when public evidence triggers the High-Risk Jurisdiction Policy, the rating is adjusted and receives an At Risk ceiling of 34.

Exceptional93-100The record's top tier (≈ top 5%); essentially all checked criteria met

Excellent80-92Strong across the board; minor gaps

Good65-79Healthy; gaps are limited and manageable

Moderate50-64Acceptable with notable gaps; review recommended

Weak35-49Material weaknesses across several areas

At Risk20-34Significant weaknesses; adoption warrants caution

Critical1-19Severe problems (abandoned, single-maintainer, no hygiene)

Score profile

Each axis is a category. The shape matters more than the average — a healthy subject fills the whole shape, while a spike-and-crater profile means strength in one dimension is masking risk in another.

The weighted overall 38 is calibrated to 33 on the published index scale (record calibration 2026-08-02).

Ownership

Genome NexusOrganization

22 followers24 public repossince Feb 2017

This repository is backed by an organization — shared, accountable stewardship that can outlive any single maintainer.

Package ecosystems

Registry	Package	Version	Downloads / mo	Versions	Last publish
npm	genome-nexus-cli	0.0.14	65	10	2251 days ago

Metrics by category

Vitality

Is the project alive — is code being written and are releases shipping?

25At Risk · 21% of overall

Development activity

1Critical

Abandonment alert

Work has arrived and nobody has attended to it

no human commit in 1268 daysautomated commits excludedpull requests left unansweredreleases stalledOpenSSF Scorecard reports it unmaintainedOverall rating: At Risk ceiling

Silence alone is never the finding — a small, finished library may need no commits for years. This alert requires both: no human commit for a long time, and obligations the project is visibly not discharging. Automated commits do not count as maintenance.

How abandonment is assessed

How it's scored

0/36	Push recency — last push 1,268 days ago
0/36	Commit cadence — 0/52 weeks with commits
0/18	Commit volume — 0 commits in the last year
0/10	OpenSSF Scorecard: Maintained — 0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0

Inputs used

commits_last_year	0
human_commit_share	0.973
days_since_last_push	1,268
active_weeks_last_year	0

Release discipline

60Moderate

How it's scored

27/27	Ships releases — 8 releases published
0/36	Release recency — latest release 2,251 days ago
27/27	Release cadence — a release every ~39.8 days
0/10	OpenSSF Scorecard: Signed-Releases — no data

Inputs used

releases_count	8
latest_release_tag	v0.0.14
releases_from_tags	no
days_since_latest_release	2,251
mean_days_between_releases	39.8

Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Signed-Releases. Remaining weights renormalized.

Community & Adoption

Does the project have users, downloads, attention, and a welcoming setup for contributors?

18Critical · 17% of overall

Popularity & adoption

5Critical

How it's scored

0/60	Stars — 0 stars
5/25	Forks — 5 forks
0/15	Watchers — 2 watchers

Inputs used

forks	5
stars	0
watchers	2
growth_state	unverified
growth_factor_pct	100
growth_unverified_reason	no_history

Community health

25At Risk

How it's scored

22.5/22.5	README
0/22.5	License — no license file detected
0/18	CONTRIBUTING guide
0/13.5	Code of conduct
0/7.2	Issue template
0/6.3	PR template

Inputs used

has_readme	yes
has_license	no
readme_badges	1
has_contributing	no
has_issue_template	no
has_code_of_conduct	no
readme_badge_services	circleci.com
has_pull_request_template	no

Ecosystem adoption (downloads)

30At Risk

How it's scored

24.3/80	Monthly downloads — 65 downloads/month across npm
0/20	Registry dependents — not reported by this ecosystem

Inputs used

packages	genome-nexus-cli
dependents	—
ecosystems	npm
total_downloads	—
monthly_downloads	65
unverified_packages_excluded	—

Excluded from scoring (no data or not applicable): Registry dependents. Remaining weights renormalized.

Sustainability & Governance

Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?

42Weak · 23% of overall

Maintainer resilience (bus factor)

24At Risk

How it's scored

9/54	Bus factor — 1 contributor(s) cover half of all commits
2.5/22.5	Commit distribution — top contributor authored 89% of commits
2.7/13.5	Contributor breadth — 2 contributors
10/10	OpenSSF Scorecard: Contributors — project has 10 contributing companies or organizations

Inputs used

bus_factor	1
contributors_sampled	2
top_contributor_share	0.887

Issue & PR responsiveness

23At Risk

How it's scored

0/42	Issue resolution — 0% of issues closed
20/30	PR acceptance — 4/6 decided PRs merged
0/13	Newcomer PR acceptance — no first-time contributor's PR decided in 30d
0/15	OpenSSF Scorecard: Code-Review — Found 1/20 approved changesets -- score normalized to 0

Inputs used

merged_prs	4
open_issues	3
closed_issues	0
prs_merged_7d	0
prs_decided_7d	0
prs_merged_30d	0
prs_decided_30d	0
issue_closed_ratio	0
closed_unmerged_prs	2
first_time_authors_30d	0
first_time_prs_merged_30d	0
first_time_prs_decided_30d	0

Excluded from scoring (no data or not applicable): Newcomer PR acceptance. Remaining weights renormalized.

Ownership & stewardship

62Moderate

How it's scored

30/30	Ownership backing — organization-owned
0/20	Verified domain
9.8/25	Owner reach — 22 followers of genome-nexus
22.2/25	Track record — 24 public repos, account ~9 yr old

Inputs used

followers	22
owner_type	Organization
is_verified	no
owner_login	genome-nexus
public_repos	24
account_age_days	3,546

Package maintenance

69Good

How it's scored

25/25	Published & resolvable — 1 package(s) on npm
4/35	Publish recency — latest publish 2,251 days ago
20/20	Version history — 10 published versions
20/20	Not deprecated — active, not deprecated or yanked

Inputs used

packages	genome-nexus-cli
ecosystems	npm
any_deprecated	no
min_days_since_publish	2,251

Engineering Quality

Are baseline engineering and documentation practices in place?

59Moderate · 19% of overall

Engineering practices

48Weak

How it's scored

24/24	CI workflows — 1 workflow(s)
24/24	Tests present
0/16	Linter config
0/9.6	Pre-commit hooks
0/6.4	.editorconfig
0/20	OpenSSF Scorecard: CI-Tests — 0 out of 3 merged PRs checked by a CI test -- score normalized to 0

Inputs used

has_ci	yes
has_tests	yes
has_editorconfig	no
has_linter_config	no
has_precommit_config	no

Documentation

75Good

How it's scored

30/30	README
0/25	Documentation directory
15/15	Documentation / homepage site — https://www.genomenexus.org
10/10	Repository description
10/10	Topics — 7 topics
10/10	Wiki

Inputs used

topics	cancer-genomics, maf-annotation, vcf, variant-annotation, json, nodejs, typescript
has_wiki	yes
homepage	https://www.genomenexus.org
docs_site	https://www.genomenexus.org
has_readme	yes
has_docs_dir	no
has_description	yes

Security

Are visible security and supply-chain practices strong, without unresolved high-risk jurisdiction exposure?

41Weak · 16% of overall

Security posture

32At Risk

How it's scored

7.5/7.5	Binary-Artifacts — no binaries found in the repo
0/7.5	Branch-Protection — no data
0/2.5	CI-Tests — 0 out of 3 merged PRs checked by a CI test -- score normalized to 0
0/2.5	CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected
0/7.5	Code-Review — Found 1/20 approved changesets -- score normalized to 0
2.5/2.5	Contributors — project has 10 contributing companies or organizations
10/10	Dangerous-Workflow — no dangerous workflow patterns detected
7.5/7.5	Dependency-Update-Tool — update tool detected
0/5	Fuzzing — project is not fuzzed
0/2.5	License — license file not detected
0/7.5	Maintained — 0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0
0/5	Packaging — no data
0/5	Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0
0/5	SAST — SAST tool is not run on all commits -- score normalized to 0
0/5	Security-Policy — security policy file not detected
0/7.5	Signed-Releases — no data
0/7.5	Token-Permissions — detected GitHub workflow tokens with excessive permissions
0/7.5	Vulnerabilities — 108 existing vulnerabilities detected

Inputs used

source	openssf_scorecard
checks_evaluated	15
scorecard_version	v5.5.0
checks_inconclusive	3
scorecard_aggregate	3.2

Excluded from scoring (no data or not applicable): Branch-Protection, Packaging, Signed-Releases. Remaining weights renormalized.

Dependency advisories

79Good

How it's scored

35/35	Direct dependencies free of known advisories — no direct dependency carries a known advisory
10/25	Indirect dependencies free of known advisories — 1 affected: tmp 0.0.33 (high 7.5)
33.7/40	No advisories left outstanding — 1 advisory-carrying package(s) unaddressed past 90 days; oldest published 438 days ago

Inputs used

source	osv
advisories	2
affected_packages	1
assessed_packages	103
unassessed_packages	0
affected_by_severity	high 1
direct_affected_packages	0

Matched the npm:genome-nexus-cli@0.0.14 runtime dependency closure — what installing the published package pulls in — 103 packages. Reachability is not analyzed.

AI Readiness

How well is the repo equipped to be developed and maintained with AI coding agents? Carries a deliberately small weight (4%): agent tooling is a real maintenance signal, but a repository with none can still reach 100/100.

49Weak · 4% of overall

Agent context & guidance

20At Risk

How it's scored

0/45	Agent instructions — no CLAUDE.md / AGENTS.md / editor rules
15/15	Machine-readable docs (llms.txt) — llms.txt served by the project website (https://docs.genomenexus.org/llms.txt)
4.5/40	Legible commit history — 6 of 71 human commits state their intent (structured subject or explanatory body)

Inputs used

has_llms_txt	yes
llms_txt_url	https://docs.genomenexus.org/llms.txt
legible_history_share	0.085
agent_instruction_files	—
agent_instruction_max_bytes	—

Verify loop (build / test / typecheck)

51Moderate

How it's scored

0/18	One-command bootstrap
22/22	Automated tests
0/11	Lint / format config
11/11	Static type checking — tsconfig.json
10/10	Reproducible environment — lockfile
0/10	Demonstrated agent practice — no agent-authored commits among the last 73
8/8	Automated maintenance — 2 of the last 73 commits are automated dependency updates
0/10	OpenSSF Scorecard: Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0

Inputs used

has_nix	no
has_tests	yes
lockfiles	yarn.lock
has_dockerfile	no
typed_language	yes
bootstrap_files	—
has_devcontainer	no
has_linter_config	no
typecheck_configs	tsconfig.json
agent_commit_share	0
toolchain_manifests	—
dependency_bot_commit_share	0.027

Code legibility for models

100Exceptional

How it's scored

45/45	Type-checkable code — TypeScript (statically typed)
55/55	Manageable file sizes — 0/7 source files over 60KB

Inputs used

primary_language	TypeScript
largest_source_bytes	17,584
source_files_sampled	7
oversized_source_files	0

Key facts

0GitHub stars

2contributors

0commits, last 12 months

1,268days since last push

8releases

1bus factor

3open issues

npmpackage ecosystems

More detail

Star and fork history 0 ★ / 5 ⇿

0Stars

5Forks

3Releases

When each star and fork was added, collected from GitHub and bucketed by day. Cumulative growth sits directly above the daily additions it is made of, so the two read against each other: steady organic accretion looks nothing like an abrupt, short-lived burst. Where that difference is measurable, it is reported as growth authenticity.

Major 0Minor 0Patch 3

OpenSSF Scorecard 3.2 / 10

3.2aggregate

Independent, tool-agnostic security assessment from the open-source OpenSSF Scorecard. Each check rewards a security practice, not a specific vendor's tool. Checks Scorecard could not determine are marked n/a and excluded from the security score (never counted as zero).Scorecard v5.5.0 · 2026-10-18 18:53 UTC

10	Binary-Artifacts	no binaries found in the repo
n/a	Branch-Protection	internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md
0	CI-Tests	0 out of 3 merged PRs checked by a CI test -- score normalized to 0
0	CII-Best-Practices	no effort to earn an OpenSSF best practices badge detected
0	Code-Review	Found 1/20 approved changesets -- score normalized to 0
10	Contributors	project has 10 contributing companies or organizations
10	Dangerous-Workflow	no dangerous workflow patterns detected
10	Dependency-Update-Tool	update tool detected
0	Fuzzing	project is not fuzzed
0	License	license file not detected
0	Maintained	0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0
n/a	Packaging	packaging workflow not detected
0	Pinned-Dependencies	dependency not pinned by hash detected -- score normalized to 0
0	SAST	SAST tool is not run on all commits -- score normalized to 0
0	Security-Policy	security policy file not detected
n/a	Signed-Releases	no releases found
0	Token-Permissions	detected GitHub workflow tokens with excessive permissions
0	Vulnerabilities	108 existing vulnerabilities detected

Direct dependencies 13

Registry	Package	Version constraint	Manifest
npm	@types/clear	`^0.1.0`	package.json
npm	@types/figlet	`^1.2.0`	package.json
npm	@types/line-reader	`^0.0.28`	package.json
npm	chalk	`^2.4.2`	package.json
npm	clear	`^0.1.0`	package.json
npm	commander	`^5.0.0`	package.json
npm	figlet	`^1.2.4`	package.json
npm	genome-nexus-ts-api-client	`^1.1.5`	package.json
npm	inquirer	`^7.0.0`	package.json
npm	line-reader	`^0.4.0`	package.json
npm	lodash	`^4.17.15`	package.json
npm	n-readlines	`^1.0.0`	package.json
npm	path	`^0.12.7`	package.json

All dependencies 661

Full resolved dependency set from the GitHub dependency graph: 14 direct and 647 indirect (transitive) packages. The transitive closure is complete when the repository commits a lockfile.

Registry	Package	Version	Relation
npm	@types/clear	`0.1.0`	direct
npm	@types/figlet	`1.2.0`	direct
npm	@types/line-reader	`0.0.28`	direct
npm	chalk	`2.4.2`	direct
npm	clear	`0.1.0`	direct
npm	commander	`2.20.3`	direct
npm	commander	`5.0.0`	direct
npm	figlet	`1.2.4`	direct
npm	genome-nexus-ts-api-client	`1.1.5`	direct
npm	inquirer	`7.0.0`	direct
npm	line-reader	`0.4.0`	direct
npm	lodash	`4.17.19`	direct
npm	n-readlines	`1.0.0`	direct
npm	path	`0.12.7`	direct
npm	@babel/code-frame	`7.5.5`	indirect
npm	@babel/core	`7.7.2`	indirect
npm	@babel/generator	`7.7.2`	indirect
npm	@babel/helper-function-name	`7.7.0`	indirect
npm	@babel/helper-get-function-arity	`7.7.0`	indirect
npm	@babel/helper-plugin-utils	`7.0.0`	indirect
npm	@babel/helper-split-export-declaration	`7.7.0`	indirect
npm	@babel/helpers	`7.7.0`	indirect
npm	@babel/highlight	`7.5.0`	indirect
npm	@babel/parser	`7.4.5`	indirect
npm	@babel/parser	`7.7.3`	indirect
npm	@babel/plugin-syntax-object-rest-spread	`7.2.0`	indirect
npm	@babel/runtime	`7.4.5`	indirect
npm	@babel/template	`7.7.0`	indirect
npm	@babel/traverse	`7.7.2`	indirect
npm	@babel/types	`7.7.2`	indirect
npm	@cnakazawa/watch	`1.0.3`	indirect
npm	@jest/console	`24.9.0`	indirect
npm	@jest/core	`24.9.0`	indirect
npm	@jest/environment	`24.9.0`	indirect
npm	@jest/fake-timers	`24.9.0`	indirect
npm	@jest/reporters	`24.9.0`	indirect
npm	@jest/source-map	`24.9.0`	indirect
npm	@jest/test-result	`24.9.0`	indirect
npm	@jest/test-sequencer	`24.9.0`	indirect
npm	@jest/transform	`24.9.0`	indirect
npm	@jest/types	`24.9.0`	indirect
npm	@mrmlnc/readdir-enhanced	`2.2.1`	indirect
npm	@nodelib/fs.stat	`1.1.3`	indirect
npm	@types/babel__core	`7.1.3`	indirect
npm	@types/babel__generator	`7.6.0`	indirect
npm	@types/babel__template	`7.0.2`	indirect
npm	@types/babel__traverse	`7.0.7`	indirect
npm	@types/events	`3.0.0`	indirect
npm	@types/glob	`7.1.1`	indirect
npm	@types/istanbul-lib-coverage	`2.0.1`	indirect
npm	@types/istanbul-lib-report	`1.1.1`	indirect
npm	@types/istanbul-reports	`1.1.1`	indirect
npm	@types/jest	`24.0.22`	indirect
npm	@types/jest-diff	`20.0.1`	indirect
npm	@types/minimatch	`3.0.3`	indirect
npm	@types/node	`12.11.1`	indirect
npm	@types/stack-utils	`1.0.1`	indirect
npm	@types/yargs	`13.0.3`	indirect
npm	@types/yargs-parser	`13.1.0`	indirect
npm	abab	`2.0.2`	indirect
npm	abbrev	`1.1.1`	indirect
npm	acorn	`5.7.4`	indirect
npm	acorn	`6.3.0`	indirect
npm	acorn-globals	`4.3.4`	indirect
npm	acorn-walk	`6.2.0`	indirect
npm	ajv	`6.10.2`	indirect
npm	ansi-align	`2.0.0`	indirect
npm	ansi-escapes	`3.2.0`	indirect
npm	ansi-escapes	`4.2.1`	indirect
npm	ansi-regex	`2.1.1`	indirect
npm	ansi-regex	`3.0.0`	indirect
npm	ansi-regex	`4.1.0`	indirect
npm	ansi-styles	`3.2.1`	indirect
npm	anymatch	`2.0.0`	indirect
npm	aproba	`1.2.0`	indirect
npm	are-we-there-yet	`1.1.5`	indirect
npm	arg	`4.1.1`	indirect
npm	arr-diff	`4.0.0`	indirect
npm	arr-flatten	`1.1.0`	indirect
npm	arr-union	`3.1.0`	indirect
npm	array-equal	`1.0.0`	indirect
npm	array-union	`1.0.2`	indirect
npm	array-uniq	`1.0.3`	indirect
npm	array-unique	`0.3.2`	indirect
npm	asn1	`0.2.4`	indirect
npm	assert-plus	`1.0.0`	indirect
npm	assign-symbols	`1.0.0`	indirect
npm	astral-regex	`1.0.0`	indirect
npm	async-each	`1.0.3`	indirect
npm	async-limiter	`1.0.1`	indirect
npm	asynckit	`0.4.0`	indirect
npm	atob	`2.1.2`	indirect
npm	aws-sign2	`0.7.0`	indirect
npm	aws4	`1.8.0`	indirect
npm	babel-jest	`24.9.0`	indirect
npm	babel-plugin-istanbul	`5.2.0`	indirect
npm	babel-plugin-jest-hoist	`24.9.0`	indirect
npm	babel-preset-jest	`24.9.0`	indirect
npm	balanced-match	`1.0.0`	indirect
npm	base	`0.11.2`	indirect
npm	bcrypt-pbkdf	`1.0.2`	indirect
npm	binary-extensions	`1.13.1`	indirect
npm	boxen	`1.3.0`	indirect
npm	brace-expansion	`1.1.11`	indirect
npm	braces	`2.3.2`	indirect
npm	browser-process-hrtime	`0.1.3`	indirect
npm	browser-resolve	`1.11.3`	indirect
npm	bs-logger	`0.2.6`	indirect
npm	bser	`2.1.1`	indirect
npm	buffer-from	`1.1.1`	indirect
npm	byline	`5.0.0`	indirect
npm	cache-base	`1.0.1`	indirect
npm	call-me-maybe	`1.0.1`	indirect
npm	callsites	`3.1.0`	indirect
npm	camelcase	`4.1.0`	indirect
npm	camelcase	`5.3.1`	indirect
npm	capture-exit	`2.0.0`	indirect
npm	capture-stack-trace	`1.0.1`	indirect
npm	caseless	`0.12.0`	indirect
npm	chardet	`0.7.0`	indirect
npm	chokidar	`2.1.8`	indirect
npm	chownr	`1.1.3`	indirect
npm	ci-info	`1.6.0`	indirect
npm	ci-info	`2.0.0`	indirect
npm	class-utils	`0.3.6`	indirect
npm	cli	`0.6.6`	indirect
npm	cli-boxes	`1.0.0`	indirect
npm	cli-cursor	`3.1.0`	indirect
npm	cli-width	`2.2.0`	indirect
npm	cliui	`5.0.0`	indirect
npm	co	`4.6.0`	indirect
npm	code-point-at	`1.1.0`	indirect
npm	collection-visit	`1.0.0`	indirect
npm	color-convert	`1.9.3`	indirect
npm	color-name	`1.1.3`	indirect
npm	combined-stream	`1.0.8`	indirect
npm	component-emitter	`1.3.0`	indirect
npm	concat-map	`0.0.1`	indirect
npm	config-chain	`1.1.12`	indirect
npm	configstore	`3.1.2`	indirect
npm	console-browserify	`1.1.0`	indirect
npm	console-control-strings	`1.1.0`	indirect
npm	convert-source-map	`1.7.0`	indirect
npm	cookiejar	`2.1.2`	indirect
npm	copy-descriptor	`0.1.1`	indirect
npm	core-util-is	`1.0.2`	indirect
npm	create-error-class	`3.0.2`	indirect
npm	cross-spawn	`5.1.0`	indirect
npm	cross-spawn	`6.0.5`	indirect
npm	crypto-random-string	`1.0.0`	indirect
npm	cssom	`0.3.8`	indirect
npm	cssstyle	`1.4.0`	indirect
npm	dashdash	`1.14.1`	indirect
npm	data-urls	`1.1.0`	indirect
npm	date-now	`0.1.4`	indirect
npm	debug	`2.6.9`	indirect
npm	debug	`3.2.6`	indirect
npm	debug	`4.1.1`	indirect
npm	decamelize	`1.2.0`	indirect
npm	decode-uri-component	`0.2.0`	indirect
npm	deep-extend	`0.6.0`	indirect
npm	deep-is	`0.1.3`	indirect
npm	define-properties	`1.1.3`	indirect
npm	define-property	`0.2.5`	indirect
npm	define-property	`1.0.0`	indirect
npm	define-property	`2.0.2`	indirect
npm	delayed-stream	`1.0.0`	indirect
npm	delegates	`1.0.0`	indirect
npm	detect-libc	`1.0.3`	indirect
npm	detect-newline	`2.1.0`	indirect
npm	diff	`4.0.1`	indirect
npm	diff-sequences	`24.9.0`	indirect
npm	dir-glob	`2.2.2`	indirect
npm	dom-serializer	`0.2.1`	indirect
npm	domelementtype	`1.3.1`	indirect
npm	domelementtype	`2.0.1`	indirect
npm	domexception	`1.0.1`	indirect
npm	domhandler	`2.3.0`	indirect
npm	domutils	`1.5.1`	indirect
npm	dot-prop	`4.2.0`	indirect
npm	duplexer3	`0.1.4`	indirect
npm	ecc-jsbn	`0.1.2`	indirect
npm	emoji-regex	`7.0.3`	indirect
npm	emoji-regex	`8.0.0`	indirect
npm	end-of-stream	`1.4.4`	indirect
npm	entities	`1.0.0`	indirect
npm	entities	`2.0.0`	indirect
npm	error-ex	`1.3.2`	indirect
npm	es-abstract	`1.16.0`	indirect
npm	es-to-primitive	`1.2.1`	indirect
npm	escape-string-regexp	`1.0.5`	indirect
npm	escodegen	`1.11.1`	indirect
npm	escodegen	`1.12.0`	indirect
npm	esprima	`3.1.3`	indirect
npm	estraverse	`4.3.0`	indirect
npm	esutils	`2.0.3`	indirect
npm	exec-sh	`0.3.4`	indirect
npm	execa	`0.7.0`	indirect
npm	execa	`1.0.0`	indirect
npm	exit	`0.1.2`	indirect
npm	expand-brackets	`2.1.4`	indirect
npm	expand-template	`2.0.3`	indirect
npm	expect	`24.9.0`	indirect
npm	extend	`3.0.2`	indirect
npm	extend-shallow	`2.0.1`	indirect
npm	extend-shallow	`3.0.2`	indirect
npm	external-editor	`3.1.0`	indirect
npm	extglob	`2.0.4`	indirect
npm	extsprintf	`1.3.0`	indirect
npm	extsprintf	`1.4.0`	indirect
npm	fast-deep-equal	`2.0.1`	indirect
npm	fast-glob	`2.2.7`	indirect
npm	fast-json-stable-stringify	`2.0.0`	indirect
npm	fast-levenshtein	`2.0.6`	indirect
npm	fb-watchman	`2.0.0`	indirect
npm	figures	`3.0.0`	indirect
npm	fill-range	`4.0.0`	indirect
npm	find-up	`3.0.0`	indirect
npm	for-in	`1.0.2`	indirect
npm	forever-agent	`0.6.1`	indirect
npm	form-data	`2.3.3`	indirect
npm	form-data	`2.5.1`	indirect
npm	formidable	`1.2.2`	indirect
npm	fragment-cache	`0.2.1`	indirect
npm	from2	`2.3.0`	indirect
npm	fs-extra	`7.0.1`	indirect
npm	fs-minipass	`1.2.7`	indirect
npm	fs.realpath	`1.0.0`	indirect
npm	fsevents	`1.2.9`	indirect
npm	function-bind	`1.1.1`	indirect
npm	gauge	`2.7.4`	indirect
npm	get-caller-file	`2.0.5`	indirect
npm	get-stream	`3.0.0`	indirect
npm	get-stream	`4.1.0`	indirect
npm	get-value	`2.0.6`	indirect
npm	getpass	`0.1.7`	indirect
npm	glob	`3.2.11`	indirect
npm	glob	`7.1.4`	indirect
npm	glob	`7.1.6`	indirect
npm	glob-parent	`3.1.0`	indirect
npm	glob-to-regexp	`0.3.0`	indirect
npm	global-dirs	`0.1.1`	indirect
npm	globals	`11.12.0`	indirect
npm	globby	`9.2.0`	indirect
npm	got	`6.7.1`	indirect
npm	graceful-fs	`4.2.2`	indirect
npm	graceful-fs	`4.2.3`	indirect
npm	growly	`1.3.0`	indirect
npm	handlebars	`4.5.1`	indirect
npm	har-schema	`2.0.0`	indirect
npm	har-validator	`5.1.3`	indirect
npm	has	`1.0.3`	indirect
npm	has-flag	`3.0.0`	indirect
npm	has-symbols	`1.0.0`	indirect
npm	has-unicode	`2.0.1`	indirect
npm	has-value	`0.3.1`	indirect
npm	has-value	`1.0.0`	indirect
npm	has-values	`0.1.4`	indirect
npm	has-values	`1.0.0`	indirect
npm	hosted-git-info	`2.8.5`	indirect
npm	html-encoding-sniffer	`1.0.2`	indirect
npm	htmlparser2	`3.8.3`	indirect
npm	http-signature	`1.2.0`	indirect
npm	iconv-lite	`0.4.24`	indirect
npm	ignore	`4.0.6`	indirect
npm	ignore-by-default	`1.0.1`	indirect
npm	ignore-walk	`3.0.3`	indirect
npm	import-lazy	`2.1.0`	indirect
npm	import-local	`2.0.0`	indirect
npm	imurmurhash	`0.1.4`	indirect
npm	inflight	`1.0.6`	indirect
npm	inherits	`2.0.3`	indirect
npm	inherits	`2.0.4`	indirect
npm	ini	`1.3.5`	indirect
npm	into-stream	`5.1.1`	indirect
npm	invariant	`2.2.4`	indirect
npm	is-accessor-descriptor	`0.1.6`	indirect
npm	is-accessor-descriptor	`1.0.0`	indirect
npm	is-arrayish	`0.2.1`	indirect
npm	is-binary-path	`1.0.1`	indirect
npm	is-buffer	`1.1.6`	indirect
npm	is-callable	`1.1.4`	indirect
npm	is-ci	`1.2.1`	indirect
npm	is-ci	`2.0.0`	indirect
npm	is-data-descriptor	`0.1.4`	indirect
npm	is-data-descriptor	`1.0.0`	indirect
npm	is-date-object	`1.0.1`	indirect
npm	is-descriptor	`0.1.6`	indirect
npm	is-descriptor	`1.0.2`	indirect
npm	is-extendable	`0.1.1`	indirect
npm	is-extendable	`1.0.1`	indirect
npm	is-extglob	`2.1.1`	indirect
npm	is-fullwidth-code-point	`1.0.0`	indirect
npm	is-fullwidth-code-point	`2.0.0`	indirect
npm	is-fullwidth-code-point	`3.0.0`	indirect
npm	is-generator-fn	`2.1.0`	indirect
npm	is-glob	`3.1.0`	indirect
npm	is-glob	`4.0.1`	indirect
npm	is-installed-globally	`0.1.0`	indirect
npm	is-npm	`1.0.0`	indirect
npm	is-number	`3.0.0`	indirect
npm	is-obj	`1.0.1`	indirect
npm	is-path-inside	`1.0.1`	indirect
npm	is-plain-object	`2.0.4`	indirect
npm	is-promise	`2.1.0`	indirect
npm	is-redirect	`1.0.0`	indirect
npm	is-regex	`1.0.4`	indirect
npm	is-retry-allowed	`1.2.0`	indirect
npm	is-stream	`1.1.0`	indirect
npm	is-symbol	`1.0.2`	indirect
npm	is-typedarray	`1.0.0`	indirect
npm	is-windows	`1.0.2`	indirect
npm	is-wsl	`1.1.0`	indirect
npm	isarray	`0.0.1`	indirect
npm	isarray	`1.0.0`	indirect
npm	isexe	`2.0.0`	indirect
npm	isobject	`2.1.0`	indirect
npm	isobject	`3.0.1`	indirect
npm	isstream	`0.1.2`	indirect
npm	istanbul-lib-coverage	`2.0.5`	indirect
npm	istanbul-lib-instrument	`3.3.0`	indirect
npm	istanbul-lib-report	`2.0.8`	indirect
npm	istanbul-lib-source-maps	`3.0.6`	indirect
npm	istanbul-reports	`2.2.6`	indirect
npm	jest	`24.9.0`	indirect
npm	jest-changed-files	`24.9.0`	indirect
npm	jest-cli	`24.9.0`	indirect
npm	jest-config	`24.9.0`	indirect
npm	jest-diff	`24.9.0`	indirect
npm	jest-docblock	`24.9.0`	indirect
npm	jest-each	`24.9.0`	indirect
npm	jest-environment-jsdom	`24.9.0`	indirect
npm	jest-environment-node	`24.9.0`	indirect
npm	jest-get-type	`24.9.0`	indirect
npm	jest-haste-map	`24.9.0`	indirect
npm	jest-jasmine2	`24.9.0`	indirect
npm	jest-leak-detector	`24.9.0`	indirect
npm	jest-matcher-utils	`24.9.0`	indirect
npm	jest-message-util	`24.9.0`	indirect
npm	jest-mock	`24.9.0`	indirect
npm	jest-pnp-resolver	`1.2.1`	indirect
npm	jest-regex-util	`24.9.0`	indirect
npm	jest-resolve	`24.9.0`	indirect
npm	jest-resolve-dependencies	`24.9.0`	indirect
npm	jest-runner	`24.9.0`	indirect
npm	jest-runtime	`24.9.0`	indirect
npm	jest-serializer	`24.9.0`	indirect
npm	jest-snapshot	`24.9.0`	indirect
npm	jest-util	`24.9.0`	indirect
npm	jest-validate	`24.9.0`	indirect
npm	jest-watcher	`24.9.0`	indirect
npm	jest-worker	`24.9.0`	indirect
npm	js-beautify	`1.5.10`	indirect
npm	js-tokens	`4.0.0`	indirect
npm	jsbn	`0.1.1`	indirect
npm	jsdom	`11.12.0`	indirect
npm	jsesc	`2.5.2`	indirect
npm	jshint	`2.5.11`	indirect
npm	json	`9.0.6`	indirect
npm	json-parse-better-errors	`1.0.2`	indirect
npm	json-schema	`0.2.3`	indirect
npm	json-schema-traverse	`0.4.1`	indirect
npm	json-stringify-safe	`5.0.1`	indirect
npm	json5	`2.1.1`	indirect
npm	jsonfile	`4.0.0`	indirect
npm	jsprim	`1.4.1`	indirect
npm	kind-of	`3.2.2`	indirect
npm	kind-of	`4.0.0`	indirect
npm	kind-of	`5.1.0`	indirect
npm	kind-of	`6.0.2`	indirect
npm	kleur	`3.0.3`	indirect
npm	latest-version	`3.1.0`	indirect
npm	left-pad	`1.3.0`	indirect
npm	leven	`3.1.0`	indirect
npm	levn	`0.3.0`	indirect
npm	load-json-file	`4.0.0`	indirect
npm	locate-path	`3.0.0`	indirect
npm	lodash.memoize	`4.1.2`	indirect
npm	lodash.sortby	`4.7.0`	indirect
npm	loose-envify	`1.4.0`	indirect
npm	lowercase-keys	`1.0.1`	indirect
npm	lru-cache	`2.7.3`	indirect
npm	lru-cache	`4.1.5`	indirect
npm	make-dir	`1.3.0`	indirect
npm	make-dir	`2.1.0`	indirect
npm	make-error	`1.3.5`	indirect
npm	makeerror	`1.0.11`	indirect
npm	map-cache	`0.2.2`	indirect
npm	map-visit	`1.0.0`	indirect
npm	merge-stream	`2.0.0`	indirect
npm	merge2	`1.3.0`	indirect
npm	methods	`1.1.2`	indirect
npm	micromatch	`3.1.10`	indirect
npm	mime	`1.6.0`	indirect
npm	mime-db	`1.40.0`	indirect
npm	mime-types	`2.1.24`	indirect
npm	mimic-fn	`2.1.0`	indirect
npm	minimatch	`0.3.0`	indirect
npm	minimatch	`1.0.0`	indirect
npm	minimatch	`3.0.4`	indirect
npm	minimist	`0.0.10`	indirect
npm	minimist	`0.0.8`	indirect
npm	minimist	`1.2.0`	indirect
npm	minipass	`2.9.0`	indirect
npm	minizlib	`1.3.3`	indirect
npm	mixin-deep	`1.3.2`	indirect
npm	mkdirp	`0.5.1`	indirect
npm	ms	`2.0.0`	indirect
npm	ms	`2.1.2`	indirect
npm	multistream	`2.1.1`	indirect
npm	mustache	`2.3.2`	indirect
npm	mute-stream	`0.0.8`	indirect
npm	nan	`2.14.0`	indirect
npm	nanomatch	`1.2.13`	indirect
npm	natural-compare	`1.4.0`	indirect
npm	needle	`2.4.0`	indirect
npm	neo-async	`2.6.1`	indirect
npm	nice-try	`1.0.5`	indirect
npm	node-int64	`0.4.0`	indirect
npm	node-modules-regexp	`1.0.0`	indirect
npm	node-notifier	`5.4.3`	indirect
npm	node-pre-gyp	`0.12.0`	indirect
npm	nodemon	`1.19.4`	indirect
npm	nopt	`1.0.10`	indirect
npm	nopt	`3.0.6`	indirect
npm	nopt	`4.0.1`	indirect
npm	normalize-package-data	`2.5.0`	indirect
npm	normalize-path	`2.1.1`	indirect
npm	normalize-path	`3.0.0`	indirect
npm	npm-bundled	`1.0.6`	indirect
npm	npm-packlist	`1.4.6`	indirect
npm	npm-run-path	`2.0.2`	indirect
npm	npmlog	`4.1.2`	indirect
npm	number-is-nan	`1.0.1`	indirect
npm	nwsapi	`2.2.0`	indirect
npm	oauth-sign	`0.9.0`	indirect
npm	object-assign	`4.1.1`	indirect
npm	object-copy	`0.1.0`	indirect
npm	object-inspect	`1.7.0`	indirect
npm	object-keys	`1.1.1`	indirect
npm	object-visit	`1.0.1`	indirect
npm	object.getownpropertydescriptors	`2.0.3`	indirect
npm	object.pick	`1.3.0`	indirect
npm	once	`1.4.0`	indirect
npm	onetime	`5.1.0`	indirect
npm	optimist	`0.6.1`	indirect
npm	optionator	`0.8.2`	indirect
npm	os-homedir	`1.0.2`	indirect
npm	os-tmpdir	`1.0.2`	indirect
npm	osenv	`0.1.5`	indirect
npm	p-each-series	`1.0.0`	indirect
npm	p-finally	`1.0.0`	indirect
npm	p-is-promise	`3.0.0`	indirect
npm	p-limit	`2.2.1`	indirect
npm	p-locate	`3.0.0`	indirect
npm	p-reduce	`1.0.0`	indirect
npm	p-try	`2.2.0`	indirect
npm	package-json	`4.0.1`	indirect
npm	parse-json	`4.0.0`	indirect
npm	parse5	`4.0.0`	indirect
npm	pascalcase	`0.1.1`	indirect
npm	path-dirname	`1.0.2`	indirect
npm	path-exists	`3.0.0`	indirect
npm	path-is-absolute	`1.0.1`	indirect
npm	path-is-inside	`1.0.2`	indirect
npm	path-key	`2.0.1`	indirect
npm	path-parse	`1.0.6`	indirect
npm	path-type	`3.0.0`	indirect
npm	performance-now	`2.1.0`	indirect
npm	pify	`3.0.0`	indirect
npm	pify	`4.0.1`	indirect
npm	pirates	`4.0.1`	indirect
npm	pkg	`4.4.0`	indirect
npm	pkg-dir	`3.0.0`	indirect
npm	pkg-fetch	`2.6.2`	indirect
npm	pn	`1.1.0`	indirect
npm	posix-character-classes	`0.1.1`	indirect
npm	prelude-ls	`1.1.2`	indirect
npm	prepend-http	`1.0.4`	indirect
npm	prettier	`1.18.2`	indirect
npm	pretty-format	`24.9.0`	indirect
npm	process	`0.11.10`	indirect
npm	process-nextick-args	`2.0.1`	indirect
npm	progress	`2.0.3`	indirect
npm	prompts	`2.3.0`	indirect
npm	proto-list	`1.2.4`	indirect
npm	pseudomap	`1.0.2`	indirect
npm	psl	`1.4.0`	indirect
npm	pstree.remy	`1.1.7`	indirect
npm	pump	`3.0.0`	indirect
npm	punycode	`1.4.1`	indirect
npm	punycode	`2.1.1`	indirect
npm	qs	`6.5.2`	indirect
npm	qs	`6.9.3`	indirect
npm	rc	`1.2.8`	indirect
npm	react-is	`16.11.0`	indirect
npm	read-pkg	`3.0.0`	indirect
npm	read-pkg-up	`4.0.0`	indirect
npm	readable-stream	`1.1.13`	indirect
npm	readable-stream	`2.3.6`	indirect
npm	readable-stream	`2.3.7`	indirect
npm	readdirp	`2.2.1`	indirect
npm	realpath-native	`1.1.0`	indirect
npm	regenerator-runtime	`0.13.3`	indirect
npm	regex-not	`1.0.2`	indirect
npm	registry-auth-token	`3.4.0`	indirect
npm	registry-url	`3.1.0`	indirect
npm	remove-trailing-separator	`1.1.0`	indirect
npm	repeat-element	`1.1.3`	indirect
npm	repeat-string	`1.6.1`	indirect
npm	request	`2.88.0`	indirect
npm	request-progress	`3.0.0`	indirect
npm	request-promise-core	`1.1.3`	indirect
npm	request-promise-native	`1.0.8`	indirect
npm	require-directory	`2.1.1`	indirect
npm	require-main-filename	`2.0.0`	indirect
npm	resolve	`1.1.7`	indirect
npm	resolve	`1.12.0`	indirect
npm	resolve	`1.6.0`	indirect
npm	resolve-cwd	`2.0.0`	indirect
npm	resolve-from	`3.0.0`	indirect
npm	resolve-url	`0.2.1`	indirect
npm	restore-cursor	`3.1.0`	indirect
npm	ret	`0.1.15`	indirect
npm	rimraf	`2.7.1`	indirect
npm	rsvp	`4.8.5`	indirect
npm	run-async	`2.3.0`	indirect
npm	rxjs	`6.5.3`	indirect
npm	safe-buffer	`5.1.2`	indirect
npm	safe-buffer	`5.2.0`	indirect
npm	safe-regex	`1.1.0`	indirect
npm	safer-buffer	`2.1.2`	indirect
npm	sane	`4.1.0`	indirect
npm	sax	`1.2.4`	indirect
npm	semver	`5.7.1`	indirect
npm	semver	`6.0.0`	indirect
npm	semver	`6.3.0`	indirect
npm	semver-diff	`2.1.0`	indirect
npm	set-blocking	`2.0.0`	indirect
npm	set-value	`2.0.1`	indirect
npm	shebang-command	`1.2.0`	indirect
npm	shebang-regex	`1.0.0`	indirect
npm	shelljs	`0.3.0`	indirect
npm	shellwords	`0.1.1`	indirect
npm	sigmund	`1.0.1`	indirect
npm	signal-exit	`3.0.2`	indirect
npm	sisteransi	`1.0.4`	indirect
npm	slash	`2.0.0`	indirect
npm	snapdragon	`0.8.2`	indirect
npm	snapdragon-node	`2.1.1`	indirect
npm	snapdragon-util	`3.0.1`	indirect
npm	source-map	`0.5.7`	indirect
npm	source-map	`0.6.1`	indirect
npm	source-map-resolve	`0.5.2`	indirect
npm	source-map-support	`0.5.13`	indirect
npm	source-map-url	`0.4.0`	indirect
npm	spdx-correct	`3.1.0`	indirect
npm	spdx-exceptions	`2.2.0`	indirect
npm	spdx-expression-parse	`3.0.0`	indirect
npm	spdx-license-ids	`3.0.5`	indirect
npm	split-string	`3.1.0`	indirect
npm	sshpk	`1.16.1`	indirect
npm	stack-utils	`1.0.2`	indirect
npm	static-extend	`0.1.2`	indirect
npm	stealthy-require	`1.1.1`	indirect
npm	stream-meter	`1.0.4`	indirect
npm	string-length	`2.0.0`	indirect
npm	string-width	`1.0.2`	indirect
npm	string-width	`2.1.1`	indirect
npm	string-width	`3.1.0`	indirect
npm	string-width	`4.1.0`	indirect
npm	string.prototype.trimleft	`2.1.0`	indirect
npm	string.prototype.trimright	`2.1.0`	indirect
npm	string_decoder	`0.10.31`	indirect
npm	string_decoder	`1.1.1`	indirect
npm	strip-ansi	`3.0.1`	indirect
npm	strip-ansi	`4.0.0`	indirect
npm	strip-ansi	`5.2.0`	indirect
npm	strip-bom	`3.0.0`	indirect
npm	strip-eof	`1.0.0`	indirect
npm	strip-json-comments	`1.0.4`	indirect
npm	strip-json-comments	`2.0.1`	indirect
npm	superagent	`3.8.3`	indirect
npm	supports-color	`5.5.0`	indirect
npm	supports-color	`6.1.0`	indirect
npm	symbol-tree	`3.2.4`	indirect
npm	tar	`4.4.13`	indirect
npm	term-size	`1.2.0`	indirect
npm	test-exclude	`5.2.3`	indirect
npm	throat	`4.1.0`	indirect
npm	throttleit	`1.0.0`	indirect
npm	through	`2.3.8`	indirect
npm	timed-out	`4.0.1`	indirect
npm	tmp	`0.0.33`	indirect
npm	tmpl	`1.0.4`	indirect
npm	to-fast-properties	`2.0.0`	indirect
npm	to-object-path	`0.3.0`	indirect
npm	to-regex	`3.0.2`	indirect
npm	to-regex-range	`2.1.1`	indirect
npm	touch	`3.1.0`	indirect
npm	tough-cookie	`2.4.3`	indirect
npm	tough-cookie	`2.5.0`	indirect
npm	tr46	`1.0.1`	indirect
npm	ts-jest	`24.1.0`	indirect
npm	ts-node	`8.4.1`	indirect
npm	tslib	`1.10.0`	indirect
npm	tunnel-agent	`0.6.0`	indirect
npm	tweetnacl	`0.14.5`	indirect
npm	type-check	`0.3.2`	indirect
npm	type-fest	`0.5.2`	indirect
npm	typescript	`3.6.4`	indirect
npm	typescript	`3.8.3`	indirect
npm	uglify-js	`3.6.8`	indirect
npm	uid2	`0.0.3`	indirect
npm	undefsafe	`2.0.2`	indirect
npm	underscore	`1.6.0`	indirect
npm	union-value	`1.0.1`	indirect
npm	unique-string	`1.0.0`	indirect
npm	unique-temp-dir	`1.0.0`	indirect
npm	universalify	`0.1.2`	indirect
npm	unset-value	`1.0.0`	indirect
npm	unzip-response	`2.0.1`	indirect
npm	upath	`1.2.0`	indirect
npm	update-notifier	`2.5.0`	indirect
npm	uri-js	`4.2.2`	indirect
npm	urix	`0.1.0`	indirect
npm	url-parse-lax	`1.0.0`	indirect
npm	use	`3.1.1`	indirect
npm	util	`0.10.4`	indirect
npm	util-deprecate	`1.0.2`	indirect
npm	util.promisify	`1.0.0`	indirect
npm	uuid	`3.3.3`	indirect
npm	validate-npm-package-license	`3.0.4`	indirect
npm	verror	`1.10.0`	indirect
npm	w3c-hr-time	`1.0.1`	indirect
npm	walker	`1.0.7`	indirect
npm	webidl-conversions	`4.0.2`	indirect
npm	whatwg-encoding	`1.0.5`	indirect
npm	whatwg-mimetype	`2.3.0`	indirect
npm	whatwg-url	`6.5.0`	indirect
npm	whatwg-url	`7.1.0`	indirect
npm	which	`1.3.1`	indirect
npm	which-module	`2.0.0`	indirect
npm	wide-align	`1.1.3`	indirect
npm	widest-line	`2.0.1`	indirect
npm	wordwrap	`0.0.3`	indirect
npm	wordwrap	`1.0.0`	indirect
npm	wrap-ansi	`5.1.0`	indirect
npm	wrappy	`1.0.2`	indirect
npm	write-file-atomic	`2.4.1`	indirect
npm	write-file-atomic	`2.4.3`	indirect
npm	ws	`5.2.2`	indirect
npm	xdg-basedir	`3.0.0`	indirect
npm	xml-name-validator	`3.0.0`	indirect
npm	y18n	`4.0.0`	indirect
npm	yallist	`2.1.2`	indirect
npm	yallist	`3.1.1`	indirect
npm	yargs	`13.3.0`	indirect
npm	yargs-parser	`10.1.0`	indirect
npm	yargs-parser	`13.1.1`	indirect
npm	yn	`3.1.1`	indirect

Dependency advisories 1

Installing npm:genome-nexus-cli@0.0.14 pulls in 103 packages, direct and transitive: 1 carry known advisories, of which 0 are direct dependencies.

Package	Version	Relation	Severity	Advisories	Fixed in
tmp	`0.0.33`	indirect	high	2	`0.2.6`

An advisory means the version recorded in the dependency graph falls inside an advisory’s affected range. Reachability is not analysed, and the graph includes development and test pins — a finding may concern tooling rather than shipped software.

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Scores are signals, not warranties. They reflect publicly visible practices on GitHub — not a code audit, and not a security guarantee.

Missing data is excluded and weights renormalized, never scored as zero. Methodology is versioned and open: metrics v2.10.0, schema v0.34.0 — full methodology · metrics wiki.

How one result sits in the wider record: aggregate statistics — npm.

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