Ian,
To assist tracking down this issue, could you provide the output of the
following commands?
uname -m
uname -s
--Dave B.
On 12/20/2013 08:43 AM, UMD Bioinformatics wrote:
Hello Devteam,
I’ve just updated my local instance to the latest version. With the migration
of tools to the tool shed I used the migrate command to keep my tools as they
were in the previous versions.
$ sh ./scripts/migrate_tools/0008_tools.sh install_dependencies
and I’ve updated the database to 117
$ sh manage_db.sh upgrade
However, when I’m using samtools I’m getting an error related to the data. I’m
not sure what the issue is and I’ve check all the .loc and .sh files and
everything is pointing to the proper locations. Any ideas what the issue might
be?
An error occurred with this dataset:Could not determine Samtools version /bin/sh: line
1: 1616 Segmentation fault: 11 samtools 2>&1 Error extracting alignments from
(/galaxy-dist/database/files/001/dataset_1585.dat),
Cheers
Ian
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