BAM level JSON generation

[PedalheadPHX]

phoenix/modules/qc/bam_qc_all.jst

Line 194 in 281cb80

{{ stats2json(sample.gltype, sample.name, task, bam_level_coverage_output, bam_level_coverage_output_json, "samtools_coverage_summary", sample_name=sample.name, library_name=sample_lb, lims_upload=false) }}

We are not creating the expected BAM/Sample/SM level JSON file when there is only 1 library for a sample (just the library level one for LIMS import is created), but when there are multiple libraries in a BAM then we do get the JSON for the BAM/Sample/SM level and each library