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Fix: ClamAV fails to complete scan (#6022) #6039

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merged 1 commit into from
Mar 26, 2024

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@dsotirho-ucsc dsotirho-ucsc commented Mar 13, 2024

Connected issues: #6022

Checklist

Author

  • PR is a draft
  • Target branch is develop
  • Name of PR branch matches issues/<GitHub handle of author>/<issue#>-<slug>
  • On ZenHub, PR is connected to all issues it (partially) resolves
  • PR description links to connected issues
  • PR title matches1 that of a connected issue or comment in PR explains why they're different
  • PR title references all connected issues
  • For each connected issue, there is at least one commit whose title references that issue

Author (partiality)

  • Added p tag to titles of partial commits
  • This PR is labeled partial or completely resolves all connected issues
  • This PR partially resolves each of the connected issues or does not have the partial label

1 when the issue title describes a problem, the corresponding PR
title is Fix: followed by the issue title

Author (chains)

  • This PR is blocked by previous PR in the chain or is not chained to another PR
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  • This PR and its connected issues are labeled API or this PR does not modify a REST API
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  • Ran make image_manifests.json and committed the resulting changes or this PR does not modify azul_docker_images, or any other variables referenced in the definition of that variable
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  • Added checklist items for additional operator tasks or this PR does not require additional tasks

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  • Added F tag to main commit title or this PR does not include permanent fix for a temporary hotfix
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Author (before every review)

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Uncheck the Author (before every review) checklists.

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System administrator (after requesting changes)

Uncheck the before every review checklists. Update the N reviews label.

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  • PR title is appropriate as title of merge commit
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  • Ran _select dev.shared && CI_COMMIT_REF_NAME=develop make -C terraform/shared apply_keep_unused or this PR is not labeled deploy:shared
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  • Ran _select anvildev.shared && CI_COMMIT_REF_NAME=develop make -C terraform/shared apply_keep_unused or this PR is not labeled deploy:shared
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1 When pushing the merge commit is skipped due to the PR being
labelled no sandbox, the next build triggered by a PR whose merge commit is
pushed determines this checklist item.

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  • Deindexed specific sources in anvilprod or this PR is neither labeled reindex:partial nor reindex:anvilprod
  • Indexed specific sources in dev or this PR is neither labeled reindex:partial nor reindex:dev
  • Indexed specific sources in anvildev or this PR is neither labeled reindex:partial nor reindex:anvildev
  • Indexed specific sources in anvilprod or this PR is neither labeled reindex:partial nor reindex:anvilprod
  • Started reindex in dev or this PR does not require reindexing dev
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  • Started reindex in anvilprod or this PR does not require reindexing anvilprod
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  • Propagated any specific instructions related to the deploy:shared, deploy:gitlab, deploy:runner, reindex:partial and reindex:prod labels from the description of this PR to that of the next promotion PR or this PR carries none of these labels
  • PR is assigned to no one

Shorthand for review comments

  • L line is too long
  • W line wrapping is wrong
  • Q bad quotes
  • F other formatting problem

@dsotirho-ucsc dsotirho-ucsc added the deploy:shared [process] PR requires deploying `shared` component label Mar 13, 2024
@github-actions github-actions bot added the orange [process] Done by the Azul team label Mar 13, 2024
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codecov bot commented Mar 13, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 85.33%. Comparing base (8bda13f) to head (6d6ec09).

Additional details and impacted files
@@           Coverage Diff            @@
##           develop    #6039   +/-   ##
========================================
  Coverage    85.33%   85.33%           
========================================
  Files          154      154           
  Lines        19969    19969           
========================================
  Hits         17040    17040           
  Misses        2929     2929           

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

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coveralls commented Mar 13, 2024

Coverage Status

coverage: 85.35%. remained the same
when pulling 6d6ec09 on issues/dsotirho-ucsc/6022-downgrade-clamav
into 8bda13f on develop.

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6039-IT_2024-03-13.txt

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From the issue,

"Assignee to file partial PR that downgrades ClamAV. Ticket will then go to parked column until upstream fixes the segmentation fault."

PR lacks indications of partiality.

@dsotirho-ucsc dsotirho-ucsc added the partial [process] PR is does not completely resolve associated ticket label Mar 14, 2024
@dsotirho-ucsc dsotirho-ucsc force-pushed the issues/dsotirho-ucsc/6022-downgrade-clamav branch from 54725e0 to 2d2eefc Compare March 14, 2024 16:51
@achave11-ucsc achave11-ucsc removed their assignment Mar 14, 2024
achave11-ucsc
achave11-ucsc previously approved these changes Mar 14, 2024
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Approved ✅

@achave11-ucsc achave11-ucsc marked this pull request as ready for review March 14, 2024 17:32
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It's not clear from the description or comments in the GH issue what the problem is. One of my comments is alluding to a segmentation fault but there is no actual error message mentioned in the issue that would corroborate that. Without this information it would be hard to file an upstream issue or look for an existing issue. It would also be good to know what file(s) cause ClamAV to crash.

environment.py Outdated
@@ -284,7 +284,9 @@ def env() -> Mapping[str, Optional[str]]:
# Updating any of the four images below additionally requires
# redeploying the `gitlab` TF component.
'clamav': {
'ref': 'docker.io/clamav/clamav:1.3.0-41'
# FIXME: https://github.com/DataBiosphere/azul/issues/6022
# Keep CalmAV at 1.2.1 until 1.3.x failure is resolved
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Suggested change
# Keep CalmAV at 1.2.1 until 1.3.x failure is resolved
# Keep ClamAV at 1.2.1 until 1.3.x failure is resolved

image_manifests.json Show resolved Hide resolved
@hannes-ucsc hannes-ucsc removed their assignment Mar 15, 2024
@hannes-ucsc hannes-ucsc added the 1 review [process] Lead requested changes once label Mar 15, 2024
@dsotirho-ucsc dsotirho-ucsc force-pushed the issues/dsotirho-ucsc/6022-downgrade-clamav branch from 2d2eefc to 2283409 Compare March 18, 2024 17:38
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It's not clear from the description or comments in the GH issue what the problem is. One of my comments is alluding to a segmentation fault but there is no actual error message mentioned in the issue that would corroborate that. Without this information it would be hard to file an upstream issue or look for an existing issue. It would also be good to know what file(s) cause ClamAV to crash.

Added verbose logs and reproduction to the ticket and linked to the comment in the ticket's description.

@hannes-ucsc hannes-ucsc added 2 reviews [process] Lead requested changes twice and removed 1 review [process] Lead requested changes once labels Mar 20, 2024
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PR labels are wrong. See checklist.

environment.py Show resolved Hide resolved
@hannes-ucsc hannes-ucsc removed their assignment Mar 20, 2024
@dsotirho-ucsc dsotirho-ucsc added the deploy:gitlab [process] PR requires deploying `gitlab` component label Mar 20, 2024
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Security design review

  • Security design review completed; this PR does not
    • … affect authentication; for example:
      • OAuth 2.0 with the application (API or Swagger UI)
      • Authentication of developers with Google Cloud APIs
      • Authentication of developers with AWS APIs
      • Authentication with a GitLab instance in the system
      • Password and 2FA authentication with GitHub
      • API access token authentication with GitHub
      • Authentication with Terra
    • … affect the permissions of internal users like access to
      • Cloud resources on AWS and GCP
      • GitLab repositories, projects and groups, administration
      • an EC2 instance via SSH
      • GitHub issues, pull requests, commits, commit statuses, wikis, repositories, organizations
    • … affect the permissions of external users like access to
      • TDR snapshots
    • … affect permissions of service or bot accounts
      • Cloud resources on AWS and GCP
    • … affect audit logging in the system, like
      • adding, removing or changing a log message that represents an auditable event
      • changing the routing of log messages through the system
    • … affect monitoring of the system
    • … introduce a new software dependency like
      • Python packages on PYPI
      • Command-line utilities
      • Docker images
      • Terraform providers
    • … add an interface that exposes sensitive or confidential data at the security boundary
    • … affect the encryption of data at rest
    • … require persistence of sensitive or confidential data that might require encryption at rest
    • … require unencrypted transmission of data within the security boundary
    • … affect the network security layer; for example by
      • modifying, adding or removing firewall rules
      • modifying, adding or removing security groups
      • changing or adding a port a service, proxy or load balancer listens on
  • Documentation on any unchecked boxes is provided in comments below

@achave11-ucsc achave11-ucsc force-pushed the issues/dsotirho-ucsc/6022-downgrade-clamav branch from 2283409 to 6d6ec09 Compare March 25, 2024 23:30
@achave11-ucsc achave11-ucsc added the sandbox [process] Resolution is being verified in sandbox deployment label Mar 26, 2024
@achave11-ucsc achave11-ucsc merged commit d86aa6d into develop Mar 26, 2024
12 checks passed
@achave11-ucsc achave11-ucsc deleted the issues/dsotirho-ucsc/6022-downgrade-clamav branch March 26, 2024 20:44
@achave11-ucsc achave11-ucsc removed their assignment Mar 27, 2024
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4 participants