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[Snyk] Fix for 10 vulnerabilities #139

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Snyk has created this PR to fix 10 vulnerabilities in the pip dependencies of this project.

Snyk changed the following file(s):

  • requirements.txt
⚠️ Warning
skeletor 1.3.0 requires scipy, which is not installed.
scikit-learn 1.0.2 requires scipy, which is not installed.
python-catmaid 2.4.0 requires scipy, which is not installed.
python-catmaid 2.4.0 has requirement setuptools>=41.0.1, but you have setuptools 40.5.0.
nptyping 2.5.0 has requirement numpy==1.21.5; python_version < "3.8", but you have numpy 1.21.3.
neuprint-python 0.4.26 requires scipy, which is not installed.
navis 1.4.0 requires scipy, which is not installed.
navis 1.4.0 has requirement setuptools>=50.6, but you have setuptools 40.5.0.
morphops 0.1.13 requires scipy, which is not installed.
molesq 0.4.0 requires scipy, which is not installed.
matplotlib 3.5.3 requires fonttools, which is not installed.
matplotlib 3.5.3 requires pillow, which is not installed.

Important

  • Check the changes in this PR to ensure they won't cause issues with your project.
  • Max score is 1000. Note that the real score may have changed since the PR was raised.
  • This PR was automatically created by Snyk using the credentials of a real user.
  • Some vulnerabilities couldn't be fully fixed and so Snyk will still find them when the project is tested again. This may be because the vulnerability existed within more than one direct dependency, but not all of the affected dependencies could be upgraded.

Note: You are seeing this because you or someone else with access to this repository has authorized Snyk to open fix PRs.

For more information:
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📚 Read about Snyk's upgrade logic


Learn how to fix vulnerabilities with free interactive lessons:

🦉 XML External Entity (XXE) Injection
🦉 NULL Pointer Dereference
🦉 Uncontrolled Resource Consumption ('Resource Exhaustion')
🦉 More lessons are available in Snyk Learn

[//]: # 'snyk:metadata:{"customTemplate":{"variablesUsed":[],"fieldsUsed":[]},"dependencies":[{"name":"fonttools","from":"4.38.0","to":"4.43.0"},{"name":"numpy","from":"1.21.3","to":"1.22.2"},{"name":"pillow","from":"9.5.0","to":"10.3.0"}],"env":"prod","issuesToFix":[{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-FONTTOOLS-6133203","priority_score":589,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"7.5","score":375},{"type":"scoreVersion","label":"v1","score":1}],"severity":"high","title":"XML External Entity (XXE) Injection"},{"exploit_maturity":"Proof of Concept","id":"SNYK-PYTHON-NUMPY-2321964","priority_score":506,"priority_score_factors":[{"type":"exploit","label":"Proof of Concept","score":107},{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"3.7","score":185},{"type":"scoreVersion","label":"v1","score":1}],"severity":"low","title":"NULL Pointer Dereference"},{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-NUMPY-2321966","priority_score":399,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"3.7","score":185},{"type":"scoreVersion","label":"v1","score":1}],"severity":"low","title":"Buffer Overflow"},{"exploit_maturity":"Proof of Concept","id":"SNYK-PYTHON-NUMPY-2321970","priority_score":506,"priority_score_factors":[{"type":"exploit","label":"Proof of Concept","score":107},{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"3.7","score":185},{"type":"scoreVersion","label":"v1","score":1}],"severity":"low","title":"Denial of Service (DoS)"},{"exploit_maturity":"Proof of Concept","id":"SNYK-PYTHON-NUMPY-2321964","priority_score":506,"priority_score_factors":[{"type":"exploit","label":"Proof of Concept","score":107},{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"3.7","score":185},{"type":"scoreVersion","label":"v1","score":1}],"severity":"low","title":"NULL Pointer Dereference"},{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-NUMPY-2321966","priority_score":399,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"3.7","score":185},{"type":"scoreVersion","label":"v1","score":1}],"severity":"low","title":"Buffer Overflow"},{"exploit_maturity":"Proof of Concept","id":"SNYK-PYTHON-NUMPY-2321970","priority_score":506,"priority_score_factors":[{"type":"exploit","label":"Proof of Concept","score":107},{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"3.7","score":185},{"type":"scoreVersion","label":"v1","score":1}],"severity":"low","title":"Denial of Service (DoS)"},{"exploit_maturity":"Mature","id":"SNYK-PYTHON-PILLOW-5918878","priority_score":909,"priority_score_factors":[{"type":"exploit","label":"High","score":214},{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"9.6","score":480},{"type":"scoreVersion","label":"v1","score":1}],"severity":"critical","title":"Heap-based Buffer Overflow"},{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-PILLOW-6043904","priority_score":589,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"7.5","score":375},{"type":"scoreVersion","label":"v1","score":1}],"severity":"high","title":"Uncontrolled Resource Consumption ('Resource Exhaustion')"},{"exploit_maturity":"Proof of Concept","id":"SNYK-PYTHON-PILLOW-6182918","priority_score":726,"priority_score_factors":[{"type":"exploit","label":"Proof of Concept","score":107},{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"8.1","score":405},{"type":"scoreVersion","label":"v1","score":1}],"severity":"high","title":"Eval Injection"},{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-PILLOW-6219984","priority_score":589,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"7.5","score":375},{"type":"scoreVersion","label":"v1","score":1}],"severity":"high","title":"Denial of Service (DoS)"},{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-PILLOW-6219986","priority_score":589,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"7.5","score":375},{"type":"scoreVersion","label":"v1","score":1}],"severity":"high","title":"Denial of Service (DoS)"},{"exploit_maturity":"No Known Exploit","id":"SNYK-PYTHON-PILLOW-6514866","priority_score":579,"priority_score_factors":[{"type":"fixability","label":true,"score":214},{"type":"cvssScore","label":"7.3","score":365},{"type":"scoreVersion","label":"v1","score":1}],"severity":"high","title":"Buffer Overflow"}],"prId":"a587d7c5-e447-4065-af3f-97f4c66c2efc","prPublicId":"a587d7c5-e447-4065-af3f-97f4c66c2efc","packageManager":"pip","priorityScoreList":[589,506,399,506,909,589,726,589,589,579],"projectPublicId":"a4bf11de-69ac-439b-9116-b0a431a20ad8","projectUrl":"https://app.snyk.io/org/virtualflybrain/project/a4bf11de-69ac-439b-9116-b0a431a20ad8?utm_source=github&utm_medium=referral&page=fix-pr","prType":"fix","templateFieldSources":{"branchName":"default","commitMessage":"default","description":"default","title":"default"},"templateVariants":["pr-warning-shown","priorityScore"],"type":"auto","upgrade":[],"vulns":["SNYK-PYTHON-FONTTOOLS-6133203","SNYK-PYTHON-NUMPY-2321964","SNYK-PYTHON-NUMPY-2321966","SNYK-PYTHON-NUMPY-2321970","SNYK-PYTHON-PILLOW-5918878","SNYK-PYTHON-PILLOW-6043904","SNYK-PYTHON-PILLOW-6182918","SNYK-PYTHON-PILLOW-6219984","SNYK-PYTHON-PILLOW-6219986","SNYK-PYTHON-PILLOW-6514866"],"patch":[],"isBreakingChange":false,"remediationStrategy":"vuln"}'

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