Revise analysis sample output file path retrieval

[nyu-molecular-pathology]

Revise analysis sample output file path retrieval

[stevekm]

started documenting more thorough sample filepath retrieval method here:

snsxt/snsxt/sns_tasks/_DemoQsubSampleTask.py

Line 38 in 961be0f

input_analysis_step = self.task_configs['input_dir']

[stevekm]

also need to reconsider consistency between sample filepath retrieval methods that return a list vs. file function methods that use character string as input, also situations where multiple files might be returned or needed from a single step. Might need to enforce filepath lists more globally throughout the program and submodules.

[stevekm]

updated sample filepath retrieval method here

snsxt/snsxt/sns_tasks/_DemoQsubSampleTask.py

Line 37 in 529cac2

sample_bam = self.get_sample_file_inputpath(sampleID = sample.id, suffix = self.input_suffix)