fix: quantification (#74)

* fix: aligned rule count_reads output iwth rule merge_counts input

* fix: added dir parameter again because output no longer a dir

* fix: outdir parameter sould now comply with linting and be functional

workflow/rules/quantification.smk

@@ -9,7 +9,7 @@ rule count_reads:
     output:
         tsv="counts/{sample}_salmon/quant.sf",
     params:
-        outdir=lambda wildcards, ouput: output[0][:-9],
+        outdir=lambda wildcards: f"counts/{wildcards.sample}_salmon",
         libtype=config["salmon_libtype"],
     log:
         "logs/salmon/{sample}.log",