Skills/PyPI/galaxy-mcp

galaxy-mcp@1.12.0

CAUTION

Publisher claims: "Model Context Protocol server for Galaxy bioinformatics platform" Observed in sandbox: no network, touches nothing outside the project, writes no memory.

Registry PyPI (MCP server)Publisher galaxyproject · joined 5 days agoInstalls 1,208Last detonated 3d ago
What would fix thisWatchDispute verdict

Is [email protected] safe to install?

KillerSkills ran it in the KillerSkills honeypot sandbox (2 scenarios) on 2026-10-31 and scored it 65/100 (Caution). It is not known to be malicious, but it has behaviour or code a security policy should decide on before install. Notable findings: Access to sensitive file paths; Credential pass-through configuration; Access to sensitive file paths. Summary: no network, touches nothing outside the project, writes no memory.

Behavior trace

Honeypot run · 1 s · 2 scenarios · 0 deviations
t+CategoryObserved action
0.0sprocessno install scripts in bundle
0.3sprocessdependency install exit 1
0.4sprocessexec /usr/bin/timeout
0.4sprocessexec .venv/bin/galaxy-mcp
0.4sprocessexited 127: timeout: failed to run command '.venv/bin/galaxy-mcp': No such file or directory
0.4sclaimedno tools/list reply (exit 127)
0.4sprocessscript backend runs setup only

Static findings

HIGH
Access to sensitive file pathssrc/galaxy_mcp/server.py:876 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
HIGH
Credential pass-through configurationsrc/galaxy_mcp/server.py:1444 · Credential pass-through configuration — agent relays sensitive credentialsFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST02
HIGH
Access to sensitive file pathssrc/galaxy_mcp/server.py:1454 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
MEDIUM
File type combined with upload actiontests/envelope_fixtures.py:12 · File type combined with upload action — agent may exfiltrate local data filesFix: Remove the call, or declare the host in frontmatter and explain in the README what is sent and why.
AST07
HIGH
Access to sensitive file pathssrc/galaxy_mcp/server.py:1353 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
MEDIUM
Python subprocess execution detectedtests/builtin_surface.py:84 · Python subprocess execution detectedFix: Build commands from fixed arguments, never from interpolated strings; prefer an API client over shelling out.
AST05
MEDIUM
File type combined with upload actiontests/envelope_fixtures.py:22 · File type combined with upload action — agent may exfiltrate local data filesFix: Remove the call, or declare the host in frontmatter and explain in the README what is sent and why.
AST07
HIGH
Access to sensitive file pathssrc/galaxy_mcp/server.py:1432 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
HIGH
Access to sensitive file pathssrc/galaxy_mcp/server.py:1436 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
MEDIUM
Outbound HTTP to raw IP addresstests/test_connection_security.py:210 · Outbound HTTP to raw IP address — may bypass domain-based monitoringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Outbound HTTP to raw IP addresstests/test_connection_security.py:31 · Outbound HTTP to raw IP address — may bypass domain-based monitoringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
URL using raw IP addresstests/test_connection_security.py:30 · URL using raw IP address — may bypass domain-based filteringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
URL using raw IP addresstests/test_tus_redirects.py:299 · URL using raw IP address — may bypass domain-based filteringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
URL using raw IP addresstests/test_connection_security.py:90 · URL using raw IP address — may bypass domain-based filteringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Python subprocess execution detectedtests/test_discovery_mode.py:69 · Python subprocess execution detectedFix: Build commands from fixed arguments, never from interpolated strings; prefer an API client over shelling out.
AST05
MEDIUM
Unicode escape sequence detectedtests/test_bounded_lists.py:708 · Unicode escape sequence detected — may contain obfuscated payloadsFix: Put hosts, commands and strings in plain source. Decoding at runtime looks identical to malware and costs points on its own.
AST07
MEDIUM
Outbound HTTP to raw IP addresstests/test_connection_security.py:30 · Outbound HTTP to raw IP address — may bypass domain-based monitoringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Outbound HTTP to raw IP addresstests/test_connection_security.py:209 · Outbound HTTP to raw IP address — may bypass domain-based monitoringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
URL with embedded credentialstests/test_tus_redirects.py:264 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07
MEDIUM
URL with embedded credentialstests/test_connection_security.py:270 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07
MEDIUM
Access to sensitive file pathstests/test_http_security.py:166 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
MEDIUM
URL using raw IP addresstests/test_connection_security.py:210 · URL using raw IP address — may bypass domain-based filteringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Outbound HTTP to raw IP addresstests/test_tus_redirects.py:299 · Outbound HTTP to raw IP address — may bypass domain-based monitoringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Unicode escape sequence detectedtests/test_bounded_lists.py:716 · Unicode escape sequence detected — may contain obfuscated payloadsFix: Put hosts, commands and strings in plain source. Decoding at runtime looks identical to malware and costs points on its own.
AST07
MEDIUM
Unicode escape sequence detectedtests/test_bounded_lists.py:739 · Unicode escape sequence detected — may contain obfuscated payloadsFix: Put hosts, commands and strings in plain source. Decoding at runtime looks identical to malware and costs points on its own.
AST07
MEDIUM
Unicode escape sequence detectedtests/test_bounded_lists.py:724 · Unicode escape sequence detected — may contain obfuscated payloadsFix: Put hosts, commands and strings in plain source. Decoding at runtime looks identical to malware and costs points on its own.
AST07
MEDIUM
Access to sensitive file pathstests/test_connection_security.py:299 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
MEDIUM
URL using raw IP addresstests/test_connection_security.py:209 · URL using raw IP address — may bypass domain-based filteringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
URL with embedded credentialstests/test_tus_redirects.py:292 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07
MEDIUM
Unicode escape sequence detectedtests/test_bounded_lists.py:742 · Unicode escape sequence detected — may contain obfuscated payloadsFix: Put hosts, commands and strings in plain source. Decoding at runtime looks identical to malware and costs points on its own.
AST07
MEDIUM
Access to sensitive file pathstests/test_http_security.py:233 · Access to sensitive file paths — SSH keys, AWS credentials, env files, or system filesFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST05
MEDIUM
Outbound HTTP to raw IP addresstests/test_connection_security.py:90 · Outbound HTTP to raw IP address — may bypass domain-based monitoringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Python subprocess execution detectedtests/test_discovery_mode.py:113 · Python subprocess execution detectedFix: Build commands from fixed arguments, never from interpolated strings; prefer an API client over shelling out.
AST05
MEDIUM
URL using raw IP addresstests/test_connection_security.py:31 · URL using raw IP address — may bypass domain-based filteringFix: Replace encoded or assembled strings with plain literals and remove undeclared network calls.
AST07
MEDIUM
Python subprocess execution detectedtests/test_discovery_mode.py:32 · Python subprocess execution detectedFix: Build commands from fixed arguments, never from interpolated strings; prefer an API client over shelling out.
AST05
MEDIUM
URL with embedded credentialstests/test_version_requirements.py:508 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07
MEDIUM
URL with embedded credentialstests/test_version_requirements.py:507 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07
MEDIUM
Destructive file system command detectedtests/test_workflow_inputs.py:443 · Destructive file system command detectedFix: Build commands from fixed arguments; do not interpolate untrusted strings into a shell.
AST05
MEDIUM
URL with embedded credentialstests/test_version_requirements.py:650 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07
MEDIUM
URL with embedded credentialstests/test_version_requirements.py:668 · URL with embedded credentials — may be phishing or credential leakingFix: Stop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
AST07

What would make this Verified

15 points to 80 · weights: behavior 45%, static 25%, prompt 15%, publisher 15%
  1. Unclaimed publisher≈ +8 on the totalClaim galaxyproject: a verified publisher gets +50 on publisher trust. It is free and usually instant with GitHub sign-in.
  2. Access to sensitive file paths≈ +4 on the totalStop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
  3. Credential pass-through configuration≈ +4 on the totalStop enumerating or reading credential locations; take secrets from a declared environment variable the user sets on purpose.
  4. New publisher≈ +3 on the totalTime clears this on its own after 14 and 30 days. Claiming the handle (+50) is the fastest way past it.
  5. File type combined with upload action≈ +2 on the totalRemove the call, or declare the host in frontmatter and explain in the README what is sent and why.
  6. Python subprocess execution detected≈ +2 on the totalBuild commands from fixed arguments, never from interpolated strings; prefer an API client over shelling out.
Publish a new version to PyPI, then queue it here. Not your skill? Claim the handle to get verdict changes by email.Claim galaxyproject