Hi All,
I input a clustalw calculated alignment into the Java webstart i.e
latest version of Jalview.
On Linux I seem to not have the ability to right click on the
consensus and output a csv to textbox.
Is there a special key-modifier I have to use to get output to textbox
from jalview for the consensus, conservation histogram and quality
annotations.
Thanks for your help
Hari
···
On Fri, Jun 11, 2010 at 4:06 AM, Jim Procter <jprocter@compbio.dundee.ac.uk> wrote:
Hi Hari,
On 13/05/2010 15:59, Jim Procter wrote:
I'm sorry about this - its entirely my fault. In my rush to get 2.5
released, I didn't verify that the old CSV output that you need was
still possible (my intention was that disabling the sequence logo
display would change the annotation mouseover and CSV text, too, but I
didn't finish implementing this).
Can you wait until the next release ? I should have time to re-instate
the old CSV export style as a bug fix to 2.5 by the end of next week.
A little bit later than advertised, but the bug-fix has now been made. The
applet now only outputs the simple CSV style, and in the application, the
full symbol distribution will only be included in the annotation row's CSV
export if the sequence logo is displayed.
Cheers.
Jim.
-----------------------------------------------------------------
J. B. Procter (JALVIEW/ENFIN) Barton Bioinformatics Research Group
Phone/Fax:+44(0)1382 388734/345764 http://www.compbio.dundee.ac.uk
The University of Dundee is a Scottish Registered Charity, No. SC015096.
Hello Hari.
Can you send me the output of the Jalview Console when you launch Jalview ? I'll try and reproduce your problem.
There are no special keystrokes needed. If you can see the 'Ignore gaps' option in the popup menu, then you should also be able to export the consensus as CSV.
Jim.
···
On Wed Jun 6 16:43:49 2012, hari jayaram wrote:
Hi All,
I input a clustalw calculated alignment into the Java webstart i.e
latest version of Jalview.
On Linux I seem to not have the ability to right click on the
consensus and output a csv to textbox.
Is there a special key-modifier I have to use to get output to textbox
from jalview for the consensus, conservation histogram and quality
annotations.
Thanks for your help
Hari
On Fri, Jun 11, 2010 at 4:06 AM, Jim Procter > <jprocter@compbio.dundee.ac.uk> wrote:
Hi Hari,
On 13/05/2010 15:59, Jim Procter wrote:
I'm sorry about this - its entirely my fault. In my rush to get 2.5
released, I didn't verify that the old CSV output that you need was
still possible (my intention was that disabling the sequence logo
display would change the annotation mouseover and CSV text, too, but I
didn't finish implementing this).
Can you wait until the next release ? I should have time to re-instate
the old CSV export style as a bug fix to 2.5 by the end of next week.
A little bit later than advertised, but the bug-fix has now been made. The
applet now only outputs the simple CSV style, and in the application, the
full symbol distribution will only be included in the annotation row's CSV
export if the sequence logo is displayed.
Cheers.
Jim.
-----------------------------------------------------------------
J. B. Procter (JALVIEW/ENFIN) Barton Bioinformatics Research Group
Phone/Fax:+44(0)1382 388734/345764 http://www.compbio.dundee.ac.uk
The University of Dundee is a Scottish Registered Charity, No. SC015096.
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