LICENSE

MANIFEST.in

PKG-INFO

README.rst

ms2pip.egg-info

SOURCES.txt

dependency_links.txt

entry_points.txt

requires.txt

top_level.txt

ms2pip

__init__.py

__main__.py

_cython_modules

ms2pip_features_c.c

ms2pip_init_c.c

ms2pip_peaks_c.c

ms2pip_pyx.pyx

_models_c

HCD-2019.h

HCD-2019

model_20190107_HCD_train_B.c

model_20190107_HCD_train_B2.c

model_20190107_HCD_train_Y.c

model_20190107_HCD_train_Y2.c

TMT.h

model_20190107_TMT_train_B.c

model_20190107_TMT_train_Y.c

_utils

cli.py

dlib.py

encoder.py

feature_names.py

psm_input.py

retention_time.py

xgb_models.py

constants.py

core.py

correlation.py

exceptions.py

result.py

spectrum.py

spectrum_input.py

spectrum_output.py

pyproject.toml

setup.cfg

setup.py

tests

test_core.py

test_encoder.py

test_fasta2speclib.py

test_predictions.py

test_retention_time.py

test_spectrum_output.py

MS2PIP: Accurate and versatile peptide fragmentation spectrum prediction. 

Arthur_declercq

paretje

RalfG

An ambiguous license classifier was found.

What is an ambiguous license classifier?

Ambiguous License Classifier

Source files are encoded using a non-standard text encoding.

What is bad text encoding?

Bad text encoding

Package version is not a valid semantic version (semver).

What is bad semver?

Bad semver

Package has dependencies with an invalid semantic version. This could be a sign of beta, low quality, or unmaintained dependencies.

What is bad dependency semver?

Bad dependency semver

Source files contain bidirectional unicode control characters. This could indicate a Trojan source supply chain attack. See: trojansource.codes for more information.

What are bidirectional unicode control characters?

Bidirectional unicode control characters

This package has multiple bin scripts with the same name. This can cause non-deterministic behavior when installing or could be a sign of a supply chain attack.

What is bin script confusion?

Bin script confusion

This Chrome extension includes content scripts that execute JavaScript on specified websites.

What are Chrome extension content scripts?

Chrome: Content Script

This Chrome extension requests host permissions to access specific websites or domains.

What are Chrome extension host permissions?

Chrome: Host Permission

This Chrome extension requests permissions to access browser APIs, user data, or system features.

What are Chrome extension permissions?

Chrome: Permission

This Chrome extension requests wildcard host permissions that grant broad access to websites.

What are Chrome extension wildcard host permissions?

Chrome: Wildcard Host Permission

Semantic versions published out of chronological order.

What is a chronological version anomaly?

Chronological version anomaly

Project maintainer's SSH key has been compromised.

What is a compromised SSH key?

Compromised SSH key

What do I need to know about license files?

Copyleft License

Contains a Critical Common Vulnerability and Exposure (CVE).

What is a critical CVE?

Title

Critical CVE

Contains a high severity Common Vulnerability and Exposure (CVE).

What is a CVE?

High CVE

Uses debug, reflection and dynamic code execution features.

What is debug access?

Debug access

The maintainer of the package marked it as deprecated. This could indicate that a single version should not be used, or that the package is no longer maintained and any new vulnerabilities will not be fixed.

What is a deprecated package?

Deprecated

Contains a known deprecated SPDX license exception.

What is a deprecated SPDX exception?

Deprecated SPDX exception

License is deprecated which may have legal implications regarding the package's use.

What is a deprecated license?

Deprecated license

Package name is similar to other popular packages and may not be the package you want.

What is a typosquat?

Possible typosquat attack

Dynamic require can indicate the package is performing dangerous or unsafe dynamic code execution.

What is dynamic require?

Dynamic require

Package does not contain any code. It may be removed, is name squatting, or the result of a faulty package publish.

What is an empty package?

Empty package

Package accesses environment variables, which may be a sign of credential stuffing or data theft.

What is environment variable access?

Environment variable access

Something was found which is explicitly marked as unlicensed.

Explicitly Unlicensed Item

Package optionally loads a dependency which is not specified within any of the package.json dependency fields. It may inadvertently be importing dependencies specified by other packages.

What are extraneous dependencies?

Name

Extraneous dependency

Contains a dependency which resolves to a file. This can obfuscate analysis and serves no useful purpose.

What are file dependencies?

File dependency

Accesses the file system, and could potentially read sensitive data.

What is filesystem access?

Filesystem access

Package has a dependency with a floating version range. This can cause issues if the dependency publishes a new major version.

What are wildcard dependencies?

Wildcard dependency

Generic ad-hoc alert, uploaded by user or produced by system diagnostics

Alert title

Generic alert

An input argument to this GitHub Action is being exported as an environment variable. If a user of this action passes untrusted input, it could be used in an insecure manner by subsequent workflow steps.

What are GitHub Actions taint flows?

GitHub Actions: Input argument exported as environment variable

An input argument to this GitHub Action is being passed back as an output. If a user of this action passes untrusted input, it could be used in an insecure manner by consuming workflows.

GitHub Actions: Input argument passed back as output

An input argument to this GitHub Action flows into a dangerous sink (such as shell command execution). This could allow a malicious user to inject commands or exploit the action.

GitHub Actions: Input argument flows to dangerous sink

A GitHub context variable (such as issue title, PR description, or comment body) is being exported as an environment variable. These context values are user-controlled and could be exploited by subsequent workflow steps.

GitHub Actions: GitHub context variable exported as environment variable

A GitHub context variable (such as issue title, PR description, or comment body) is being passed back as an output. These context values are user-controlled and could be exploited by consuming workflows.

GitHub Actions: GitHub context variable passed back as output

A GitHub context variable (such as issue title, PR description, or comment body) flows into a dangerous sink (such as shell command execution). This is a critical security issue that could allow command injection or code execution attacks.

GitHub Actions: GitHub context variable flows to dangerous sink

An environment variable flows into a dangerous sink (such as shell command execution). If this environment variable comes from an untrusted source, it could be exploited to inject commands.

GitHub Actions: Environment variable flows to dangerous sink

Contains a dependency which resolves to a remote git URL. Dependencies fetched from git URLs are not immutable and can be used to inject untrusted code or reduce the likelihood of a reproducible install.

What are git dependencies?

Git dependency

Contains a dependency which resolves to a GitHub URL. Dependencies fetched from GitHub specifiers are not immutable can be used to inject untrusted code or reduce the likelihood of a reproducible install.

What are GitHub dependencies?

GitHub dependency

AI has identified unusual behaviors that may pose a security risk.

What is an AI-detected potential code anomaly?

AI-detected potential code anomaly

AI has identified this package as a potential typosquat of a more popular package. This suggests that the package may be intentionally mimicking another package's name, description, or other metadata.

What is AI-detected potential typosquatting?

AI-detected possible typosquat

AI has identified this package as malware. This is a strong signal that the package may be malicious.

What is AI-detected potential malware?

AI-detected potential malware

AI has determined that this package may contain potential security issues or vulnerabilities.

What are AI-detected potential security risks?

AI-detected potential security risk

Contains native code (e.g., compiled binaries or shared libraries). Including native code can obscure malicious behavior.

Why is native code a concern?

Native code

Contains high entropy strings. This could be a sign of encrypted data, leaked secrets or obfuscated code.

What are high entropy strings?

High entropy strings

Contains unicode homoglyphs which can be used in supply chain confusion attacks.

What are unicode homoglyphs?

Unicode homoglyphs

Contains a dependency which resolves to a remote HTTP URL which could be used to inject untrusted code and reduce overall package reliability.

What are http dependencies?

HTTP dependency

Install scripts are run when the package is installed or built. Malicious packages often use scripts that run automatically to execute payloads or fetch additional code.

What is an install script?

Install scripts

Package has an invalid manifest file and can cause installation problems if you try to use it.

What is an invalid manifest file?

Invalid manifest file

Source files contain invisible characters. This could indicate source obfuscation or a supply chain attack.

ms2pip - pypi Package File explorer