Hi Bjoern,
I've upgraded our machine and confirmed it now works fine. Thanks for that!
Shane
On 22/08/2013, at 5:17 AM, Bjoern Gruening bjoern.gruen...@gmail.com wrote:
Hi Shane,
please find a new bismark version with an updated dependency on samtools
0.1.19 here:
http://toolshed.g2.bx.psu.edu/view/bgruening/bismark
Thanks for reporting that issue,
Bjoern
I've had a bit of a time trying to get Bismark working on our Galaxy
instance. The install doesn't work because of the dependency on
samtools 0.1.18 but in fact it requires samtools 0.1.19. I have a
build of that installed as standard on our system so putting a symlink
to that in the place of the samtools built for the bismark wrapper
makes it work - I was seeing issues where the BAM file wasn't created
and noticed in Bjoern's readme.rst that said it required samtools
0.1.19 or later.
Shane
--
For urgent cases, contact supp...@biomatters.com
Dr Shane Sturrock
shane.sturr...@biomatters.com
Senior Scientist
Tel: +64 (0) 9 379 5064
76 Anzac Ave
Auckland
New Zealand
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For urgent cases, contact supp...@biomatters.com
Dr Shane Sturrock
shane.sturr...@biomatters.com
Senior Scientist
Tel: +64 (0) 9 379 5064
76 Anzac Ave
Auckland
New Zealand
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