Exception in thread "main" htsjdk.samtools.util.RuntimeIOException:
java.io.IOException: Read-only file system
https://github.com/IARCbioinfo/polysolver-singularity
sed -i 's.#!/bin/sh.#!/bin/bash.g' /home/polysolver/scripts/shell_call_hla_type
sed -i 's.TMP_DIR=\$outDir.TMP_DIR=/tmp.g' /home/polysolver/scripts/shell_call_hla_type
sed -i 's.TMP_DIR=/home/polysolver.TMP_DIR=/tmp.g' /home/polysolver/scripts/shell_call_hla_type
sed -i 's.\$SAMTOOLS_DIR./home/polysolver/binaries.g' /home/polysolver/scripts/shell_call_hla_type
sed -i 's.6:29941260-29945884.chr6:29941260-29945884.g' /home/polysolver/scripts/shell_call_hla_type
sed -i 's.6:31353872-31357187.chr6:31353872-31357187.g' /home/polysolver/scripts/shell_call_hla_type
sed -i 's.6:31268749-31272105.chr6:31268749-31272105.g' /home/polysolver/scripts/shell_call_hla_type
