Dear all, I have mapped some Illumina reads to a reference using Bowtie. I am trying to use Sam Tools to convert Sam to Bam on our local galaxy, but it always fails: Traceback (most recent call last): File "/export/galaxy/galaxy-central/lib/galaxy/jobs/runners/local.py", line 155, in run_job job_wrapper.finish( stdout, stderr, exit_code ) File "/export/galaxy/galaxy-central/lib/galaxy/jobs/__init__.py", line 396, in finish dataset.datatype.set_meta( dataset, overwrite = False ) #call datatype.set_meta directly for the initial set_meta call during dataset creation File "/export/galaxy/galaxy-central/lib/galaxy/datatypes/binary.py", line 213, in set_meta raise Exception, "Error Setting BAM Metadata: %s" % stderr Exception: Error Setting BAM Metadata: /bin/sh: samtools: command not found Tool execution generated the following error message: Unable to finish job The resulting failure always generates a large file, as if it has almost completed…… Anybody got an idea what the error might be and how to solve it please? Thanks in advance, Nick