[Jalview-discuss] issues when exporting EPS from jalview

[Fernan Aguero]

Hi,

I'm trying to prepare a figure using Jalview, and as per the
instructions, I'm activating the wrapping in the alignment, and after
removing columns to the left and right of the desired region, and
resizing the jalview window to obtain a nice alignment (I'd like to
have blocks of ~ 60 columns) and then printing to a .ps file, I find
that the output is always wrapped at the same column (residue 71 of
the 1st seq), no matter what I do.

The only way of getting close to what I want is by altering the
margins when printing ... which doesn't give me a good control to wrap
my alignment exactly where I want ...

Other issues I've noticed:

* when printing I have to select the largest possible paper otherwise
the output is truncated. In this case I've chosen A3 paper for
printing. It'd be nice if jalview offered a custom paper size

* It'd also be nice if we could specify a % enlargement/reduction when
printing, so we that we could avoid tweaking font sizes, and just say
50% when printing (belvu supports this nicely). With jalview the only
way of reducing the output is by changing the font size or later by
editing the ps file in inkscape or illustrator.

* when trying to print again to a file, I need to specify the path and
name of the output file. When trying to print again in the same
session, using the same file (i.e after changing something, like when
resizing the window), jalview opens the dialog sitting at the default
dir (it forgets the previous path) and I have to navigate *again* to
the my current workdir. After 2-3 times, it gets annoying to repeat
this.

This is on ubuntu 9.10, using Jalview 2.4.0b2 (just installed).

Hope this helps! And thanks for a great piece of software!

-- 
fernan