#!/bin/bash
echo "Converting normal tif to pyramidal tif"
num_tif_files=$(ls -l *.tif | wc -l)
echo "Total tif files:" $num_tif_files

num=0
for file in *.tif ; do
    num=$[$num + 1]
    echo "$num" $file
    convert "$file" -compress jpeg -quality 90 -define tiff:tile-geometry=256x256 ptif:"wsi_$file"
done