[Bioperl-l] Need info re Prodom & Stockholm formats and univaln.t2
Mon, 11 Sep 2000 10:02:02 -0700
In developing the new "AlignIO.pm" module, I have been using various
multiple-alignment data files ("test.pfam, "test.mase" etc) in the "/t"
directory to confirm that the new module is parsing properly.
However, for the formats "prodom" and "stockholm" (which are included among
the formats accepted by SimpleAlign.pm) I do not find any sample files. Can
anyone out there send me sample prodom- and/or stockholm-format multiple
sequence alignment files so that I can test that the new input modules for
these formats are parsing correctly?
Also, in the module UnivAln.pm, there is reference to a script "univaln.t2"
which more fully exercises the UnivAln module. Does anyone out there (Ewan?,
Georg?, Steve?) have a copy of this script they could send me? I am trying
to assess the feasibility and level of effort required to merge the
functionalities of the SimpleAlign and UnivAln modules once multiple
alignment IO has been stripped out using AlignIO.