updated prettier -w

Author: jbv2

docs/development/manual_tests.md

@@ -54,12 +54,10 @@ Tool Specific combinations
 - fastp
   - with/without complexity filtering ✅
 - AdapterRemoval
-
   - with/without skipqualitytim ✅
   - with/without skipntrimming ✅
 
 - Markduplicates
-
   - With FastP
     - SE&PE data ✅
     - SE&PE data + preprocessing_excludeunmerged ✅
@@ -71,7 +69,6 @@ Tool Specific combinations
     - PE_only + preprocessing_excludeunmerged ✅
 
 - Dedup
-
   - With FastP
     - SE&PE data ✅ (expected failure)
     - SE&PE data + preprocessing_excludeunmerged ✅ (expected failure)
@@ -82,21 +79,17 @@ Tool Specific combinations
     - PE_only + preprocessing_excludeunmerged ✅
 
 - Damage Manipulation
-
   - MapDamage2
-
     - mapdamage2 rescaling with default parameters
     - mapdamage2 rescaling with changed parameters
 
   - PMD filtering
-
     - with default parameters
     - with stricter threshold
     - with fasta masking
     - with fasta masking for 1 of 2 references
 
   - BAM trimming
-
     - with default parameters
     - different length by udg treatment
 

docs/output.md

@@ -168,7 +168,6 @@ The resulting FASTQ files will only be present in your results directory if you
 <summary>Output files</summary>
 
 - `mapping/bwa{aln,mem}/`
-
   - `*.bam`: Sorted reads aligned against a reference genome in BAM format with no additional filtering.
   - `*.{bai,csi}`: Index file corresponding to a BAM file which is for faster downstream steps (e.g. SAMtools).
   - `*.flagstat`: Statistics of aligned reads from SAMtools `flagstat`.