Announcement: Patch 4.02 for W2H-4.0 released

[Peter Ernst]

W2H-EMBOSS patch announcement (patch 4.02)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
(W2H is a free WWW interface to sequence analysis software tools like
EMBOSS)

contains:
     w2h/ACDParser.pm
     w2h/acd.y
     w2h/emboss/util.appdesc_from_wossname
     w2h/emboss/util.appmenu_from_wossname


Files acd.y  and ACDParser.pm:
==============================

  This patch for W2H supports the new keywords in EMBOSS' .acd files,
  that came with EMBOSS-2.1.0 (e.g. gui, report, align, section,  ...).

  Furthermore, the behavior of W2H has changed if the application has
  two input sequence qualifiers (e.g. water, needle, est2genome): W2H
  allows the selection of both input sequences from the main window.

  If you don't want the new behavior for some EMBOSS applications, you
  can specify a list of application names, where W2H should continue
  to use the old scheme. E.g. Est2Genome seems to work better with the
  old scheme. Just add the following variable in your Cfg.pl(.emboss)
  file:

# --- comma separated list of applications where W2H should NOT convert
#     SeqSet and SeqAll parameters into Sequence parameters
#     (affects the cases:     1 sequence vs. many sequences  or
#                         many sequences vs. many sequences
$EMBOSS_KEEP_SEQSETS = "Est2Genome";


Files emboss/util.appmenu_from_wossname  and
      emboss/util.appdesc_from_wossname:
============================================

  The new versions of the utilities
  (used to create
     config/application.menu.emboss   # menu structure see Cfg.pl's $APPMENU
     config/application.desc.emboss   # appl.descriptions see Cfg.pl's $APPDESCRIPTION
  )
  can create slightly improved versions of the configuration files
  from the EMBOSS application wossname:

  util.appmenu_from_wossname: creates a menu structure with several
     sub-levels (ignoring applications which are not "GUIable"
     (gui:N), e.g. emnu)

  util.appdesc_from_wossname [ maxlen-of-desc-text(70) ]: this version
     can cut the description texts to a specified length (defaults to
     70 chars). With a value of "0" the description texts provided by
     wossname are not cut (old behavior).

Availability:

   ftp://genome.dkfz-heidelberg.de/pub/w2h    and/or
   ftp://ftp.ebi.ac.uk/pub/software/unix/w2h

W2H homepage:

   http://www.w2h.dkfz-heidelberg.de/   and/or
   http://industry.ebi.ac.uk/w2h

15 January 2002
Peter Ernst <P.Ernst at dkfz-heidelberg.de>