> Hello,
> I am trying to upload BAM files (by pasting a URL) to my history(or
DataLibrary) and get the following error. These are bam files which I had
previously uploaded with no problems.
>
> Traceback (most recent call last):
> File "/doolittle/Galaxy/galaxy_dist/lib/galaxy/jobs/runners/local.py",
line 126, in run_job
> job_wrapper.finish( stdout, stderr )
> File "/doolittle/Galaxy/galaxy_dist/lib/galaxy/jobs/__init__.py",
line 618, in finish
> dataset.set_meta( overwrite = False )
> File "/doolittle/Galaxy/galaxy_dist/lib/galaxy/model/__init__.py",
line 874, in set_meta
> return self.datatype.set_meta( self, **kwd )
> File "/doolittle/Galaxy/galaxy_dist/lib/galaxy/datatypes/binary.py",
line 179, in set_meta
> raise Exception, "Error Setting BAM Metadata: %s"
% stderr
> Exception: Error Setting BAM Metadata: [bam_header_read] EOF marker
is absent. The input is probably truncated.
> [bam_header_read] invalid BAM binary header (this is not a BAM file)
>
> I ran bamtools on the unix command line to see if there was anything
wrong with the file(s) but nothing. I tried uploading different bam files
from other projects and get the same error.
>
> I did do an update to the latest release yesterday...if that helps?
Hi Liisa,
Is this a regular upload via a browser?
--nate
>
> Thanks in advance,
> Liisa
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
> http://lists.bx.psu.edu/
>