:bug: remove chrlen chrs not in ballele

[dmiller15]

Description

Changes:

• Update the awk_chrlen_builder tool to remove CHRs that do not appear in the b_allele file
• Update interval documentation to reflect this change

Closes https://d3b.atlassian.net/browse/BIXU-3770

Type of change

Please delete options that are not relevant.

• [x] Bug fix (non-breaking change which fixes an issue)
• [x] Documentation update

How Has This Been Tested?

Please describe the tests that you ran to verify your changes. Provide instructions so we can reproduce. Please also list any relevant details for your test configuration

• [x] In workflow https://cavatica.sbgenomics.com/u/d3b-bixu-ops/sd-bhjxbdqk-dgd-somatic-mutations-target-tumor/tasks/dc1b69d8-d05b-48b6-87bf-e4706b463bd1/
• [x] Without variants file: https://cavatica.sbgenomics.com/u/kfdrc-harmonization/kf-reference-pipeline/tasks/ea6b5aa8-b0a9-44b3-b9a4-7811a12365c3/
• [x] With variants file (appropriately removes chrY/M): https://cavatica.sbgenomics.com/u/kfdrc-harmonization/kf-reference-pipeline/tasks/beb1f316-b99e-46da-a6ba-925c17df478d/

Test Configuration:

• Environment:
• Test files:

Checklist:

• [x] My code follows the style guidelines of this project
• [x] I have performed a self-review of my own code
• [x] I have commented my code, particularly in hard-to-understand areas
• [x] I have made corresponding changes to the documentation
• [x] My changes generate no new warnings
• [x] I have added tests that prove my fix is effective or that my feature works
• [x] New and existing unit tests pass locally with my changes
• [x] Any dependent changes have been merged and published in downstream modules
• [x] I have checked my code and corrected any misspellings
• [x] I have committed any related changes to the PR