Add Vercel configuration for rewrites and build settings

99.scripts/workflow/plastid/mapping.sh

@@ -0,0 +1,15 @@
+#! /usr/bash
+if [ "$#" -ne 5 ]; then
+    echo "Usage: $0 <reference_genome> <fastq_1> <fastq_2> <output_directory> <stem>"
+    exit 1
+fi
+ref=$1
+fq1=$2
+fq2=$3
+outdir=$4
+stem=$5
+mkdir -p "$outdir"
+hisat -p 4 --dta -x "$ref" -1 "$fq1" -2 "$fq2" -S "${outdir}/${stem}.sam"
+samtools view -b -@ 4 "${outdir}/${stem}.sam" | samtools sort -@ 4 -o "${outdir}/${stem}.sorted.bam" --write-index
+rm "${outdir}/${stem}.sam"
+echo "Mapping completed. Sorted BAM file is at ${outdir}/${stem}.sorted.bam"