Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Data tables to JSON files #18

Open
wants to merge 2 commits into
base: main
Choose a base branch
from

Conversation

lxhlxhlxh555
Copy link
Collaborator

  1. Codes have been further split for modularity.
  2. Added code comments for clarity.
  3. Added the function to export data tables to JSON files for the front-end.

Relevant test files and commands are as follows:

Total pipeline test:

python3 main.py --vcf data/NA12878wxs.g.vcf --vep data/tester_1_VEP.html --resultsDir output/sample --GATKthreads 8
python3 main.py --bamFile data/NA12878wxs.bam --vep data/tester_1_VEP.html --resultsDir output/sample  --GATKthreads 8

or function test:

python3 scripts/to_front_jsons.py geno_tables_to_jsons data/sample/tables_full output/test/front_jsons
python3 scripts/to_front_jsons.py vep_labex_tables_to_jsons data/sample/vep_dir data/sample/latex output/test/front_jsons

tables_full.zip
vep_dir.zip
latex.zip
tester_1_VEP.html.zip

@IsmailM IsmailM changed the base branch from gVCF_entrypoint to master August 29, 2023 13:13
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

1 participant