seasnap-mapping does not run for some in path configurations

[january3]

Fastq files were stored according to the following pattern:

input/{sample}/fastq/{sample}{lane}{mate}

seasnap-mapping with this configuration did not correctly run - the file
argument was empty for fastqc and star.

[bobermayer]

can confirm with pattern input/{sample}/fastq/{sample}_S*_{lane}_{mate}_*.
at least for star and fastqc, I think it's because there's no all_lanes flag as (e.g.,) in rule ciri
patrick has a # TODO: case of ignored wildcards? meant for e.g. allFlowcell in get_fastq_pairs