Codex, Plugin
Codex Science
Codex Science has PlugVet grade B (Minor notes only) from our automated hygiene checks. Finding: makes a network call whose host is not written as a fixed address. This is a hygiene check, not a security audit or a guarantee. Graded on 16/10/2026.
Codex-native life-sciences workflow pack with scientific skills, MCP connector catalog, and bilingual documentation.
Compatibility: Not stated.
Grade B
Minor issues only, no Medium or High. Worth a quick look at the findings below before installing.
Not a guarantee. A hygiene check of the source at the commit shown, not a security audit.
Rescanned at commit 6becdeafcb8a, unchanged since the check below.
NETWORK_NO_FIXED_HOST PERMISSION_SHELL_DECLARED INSTALL_DOCUMENTED_INSTALLER OBFUSCATION_FILE_OVER_READ_CAP
Why this grade
- NETWORK_NO_FIXED_HOST Low
Makes a network call whose host is not written as a fixed address.
desktop/src/main/main.ts, line 276
const response = await fetch(endpointFor(profile), { - PERMISSION_SHELL_DECLARED Note
Runs shell commands, and the manifest or description says so.
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 58
result = subprocess.run( - INSTALL_DOCUMENTED_INSTALLER Note
Documentation shows an installer that pipes a download into a shell.
plugins/codex-science/skills/nextflow-development/SKILL.md, line 75
| Not installed | `curl -s https://get.nextflow.io \| bash && mv nextflow ~/bin/` | - OBFUSCATION_FILE_OVER_READ_CAP Note
A file was over the read cap and was not fully read.
desktop/package-lock.json, line 1
{
Any High, or two or more Medium findings, give D. One Medium gives C. Low findings or a security Note give B. Each code names a finding behind the letter.
Grades are a hygiene check of the source at the commit shown, on the date checked, not a security audit or a guarantee. The free directory grades are automated. Before release, a PlugVet engineer reviews every paid report and any grade we hold back, including all F grades, against the source code and the evidence we quote.
What was checked
Plain notes from the hygiene checks.
Permissions
Note
requests shell access. The manifest names this permission.
PERMISSION_SHELL_DECLARED
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 58
result = subprocess.run(
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 124
result = subprocess.run(
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 191
result = subprocess.run(
Show more
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 257
result = subprocess.run(
plugins/codex-science/skills/nextflow-development/scripts/manage_genomes.py, line 290
aws_available = subprocess.run(
plugins/codex-science/skills/nextflow-development/scripts/manage_genomes.py, line 346
result = subprocess.run(cmd, capture_output=True, text=True)
Install and update
Note
The docs document an installer that pipes a download into a shell.
INSTALL_DOCUMENTED_INSTALLER
plugins/codex-science/skills/nextflow-development/SKILL.md, line 75
| Not installed | `curl -s https://get.nextflow.io \| bash && mv nextflow ~/bin/` |
plugins/codex-science/skills/nextflow-development/references/installation.md, line 15
curl -s https://get.nextflow.io | bash
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 120
fix="curl -s https://get.nextflow.io | bash && mv nextflow ~/bin/ && export PATH=$HOME/bin:$PATH"
Network
Concern
can reach a host that is not written as a fixed address.
NETWORK_NO_FIXED_HOST
desktop/src/main/main.ts, line 276
const response = await fetch(endpointFor(profile), {
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 320
urllib.request.urlopen(req, timeout=10)
plugins/codex-science/skills/nextflow-development/scripts/check_environment.py, line 328
urllib.request.urlopen(req, timeout=10)
Show more
plugins/codex-science/skills/nextflow-development/scripts/utils/ncbi_utils.py, line 67
response = requests.get(url, timeout=10)
plugins/codex-science/skills/nextflow-development/scripts/utils/ncbi_utils.py, line 103
response = requests.get(search_url, timeout=30)
plugins/codex-science/skills/nextflow-development/scripts/utils/ncbi_utils.py, line 120
response = requests.get(summary_url, timeout=30)
plugins/codex-science/skills/nextflow-development/scripts/utils/ncbi_utils.py, line 160
response = requests.get(search_url, timeout=30)
plugins/codex-science/skills/nextflow-development/scripts/utils/ncbi_utils.py, line 176
response = requests.get(summary_url, timeout=30)
Secrets
Pass
No read of a credential file or secret environment variable found.
Agent instructions
Pass
No instruction to ignore earlier instructions or to hide a step.
Obfuscation
Note
a file was over the read cap and was not fully read.
OBFUSCATION_FILE_OVER_READ_CAP
desktop/package-lock.json, line 1
{
Licence
Pass
A licence file is present (LICENSE).
Maintainer activity
Pass
The latest commit is within the last 365 days.
Note
Hygiene check of commit 6becdeafcb8a. requests shell access. The manifest names this permission. The docs document an installer that pipes a download into a shell. can reach a host that is not written as a fixed address. a file was over the read cap and was not fully read.
Date and source
Date checked:
github.com
Commit graded: 6becdeafcb8a99a5d647c213ed63d139d23bded4
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