Updated params and modules to conform to nf-core standards.
simplified to a single test profile, removed standard profile
simplified several params
Checklist
Go Through Checklist Below and Place A :heavy_check_mark: (X Inside the Box) if Completed
General Checks
[X] Have you run appropriate tests (unit/integration/end-to-end) to check logic across run environments (Conda/Docker/Singularity on Scicomp/AWS/NF Tower/Local)?
For each relevant configuration:
Can the program run completely through without erroring out?
Does it produce the expected outputs, given the inputs provided?
[X] Have you conducted proper linting procedures?
Numpy formatted docstrings for functions
Comments explaining lines of code
Consistent and intuitive naming conventions for variables, functions, classes, methods, attributes, and scripts
Single empty line between class functions, two lines between non-class functions, and two lines between imports and code body
Camel case formatting for class names
[X] Have you updated existing documentation (README.md, etc.) or created new ones within docs?
CDC Checks
[] Did you check for sensitive data, and remove any?
[] If you added or modified HTML, did you check that it was 508 compliant?
Are additional approvals needed for this change? If so, please mention them below:
Are there potential vulnerabilities or licensing issues with any new dependencies introduced? If so, please mention them below:
Description
Checklist
Go Through Checklist Below and Place A :heavy_check_mark: (X Inside the Box) if Completed
General Checks
[X] Have you run appropriate tests (unit/integration/end-to-end) to check logic across run environments (Conda/Docker/Singularity on Scicomp/AWS/NF Tower/Local)?
For each relevant configuration:
[X] Have you conducted proper linting procedures?
[X] Have you updated existing documentation (README.md, etc.) or created new ones within docs?
CDC Checks
Are additional approvals needed for this change? If so, please mention them below:
Are there potential vulnerabilities or licensing issues with any new dependencies introduced? If so, please mention them below: