Hmm, I don't see a patch for your changes to the wrapper script. Can you please
bundle up and send along your tool definition + wrapper script changes and I'll
add it to the card?
Thanks,
J.
On Feb 28, 2013, at 4:47 AM, Peter Briggs wrote:
Hi Jeremy - that's awesome, thanks!
One thing:
Attached to the card, thanks Peter.
J.
On Feb 28, 2013, at 11:14 AM, Peter Briggs wrote:
Hi Jeremy
No problem - zip file with the two patches is attached, please let me know if
there's a problem.
Best wishes
Peter
On 28/02/13 15:07, Jeremy Goecks wrote:
Hmm, I don't see a patch for
Hello Alexander
I've made some changes to our local copy of the bowtie tool files
(bowtie_wrapper.xml and bowtie_wrapper.py) to give the option of
capturing bowtie's stderr output and adding it as an additional history
item (here the statistics in this output is used as input to a local
Thanks Peter. I've added your patch to the Trello card tracking incorporation
of community contributions to the Bowtie wrapper:
https://trello.com/c/TdYxdbkm
Best,
J.
On Feb 27, 2013, at 4:35 AM, Peter Briggs wrote:
Hello Alexander
I've made some changes to our local copy of the bowtie
Thanks it is working now.
Best wishes,
Alex
On Wed, Feb 27, 2013 at 9:35 AM, Peter Briggs peter.bri...@manchester.ac.uk
wrote:
Hello Alexander
I've made some changes to our local copy of the bowtie tool files
(bowtie_wrapper.xml and bowtie_wrapper.py) to give the option of capturing
Hello,
I am using the bowtie-wrapper on my locally installed galaxy server to
align reads. However I missing the stats read-out. Is there any possibility
to include statistics about unaligned reads?
If I use bowtie vi comman line I get following output:
bowtie ~/dm3 -v 2 -k 5 --best --strata
