[INFO][Launcher]biostar139647 Exited with failure (-1)

[tbazilegith]

Verify

Module installed in cluster java/1.8.0_31 3) jvarkit/20180405

Subject of the issue

I want to convert a fasta alignment into bam command used: biostar139647 aln_dir/lp_allstrains03.aln -o aln_dir/lp_allstrains03.bam --samoutputformat BAM

Your environment

• java/1.8.0_31 3) jvarkit/20180405
• version of java
• Linux

Steps to reproduce

Tell us how to reproduce this issue. Please provide an example.

• the attached alignment

Expected behaviour

creating the file lp_allstrains03.bam

Actual behaviour

[INFO][Launcher]biostar139647 Exited with failure (-1)

[lindenb]

Hi,

biostar139647 ...

this is not the correct way to run the command. It should be something like java -jar jvarkit.jar biostar139647 .... see the documentation. https://jvarkit.readthedocs.io/en/latest/Biostar139647/

if it still fails, please provide a minimal set of files to reproduce the problem.