# --- optional file containing the 'umask' used by W2H processes # this file will be searched in the $W2H_SCRATCH directory ##$W2H_UMASK = ".w2h-umask";
# --- the recommended values of $SEQINFO, $SEQINFO_AUTO and @GIFDEVS have changed # since W2H 4.0 ! # --- path and name of 'eseqinfo.pl'; this program is used for # fetching attributes of sequences; if you let $SEQINFO empty (or # pointing to a file which is not an executable program) then the # program 'eseqinfo.pl' will not be used and the sequence # attributes will be silently ignored (that means: not shown) # 'eseqinfo.pl' requires the EMBOSS program 'infoseq' and is # located in W2H's bin directory ($COMAPP) $SEQINFO = "$COMAPP/eseqinfo.pl"; # --- how often to use the SEQINFO program described one line above; # It seems that on some installations (depending on the local # conditions) the frequent usage of 'seqinfo' could be time # consuming and therefore user confusing. Specify here 'yes' if # you wish to add sequence attributtes everytime a new sequence is # added to the working list. Or let it empty (or specify 'no') if # the sequence attributtes have to be added only 'on-demand' # (button 'Change' in the main window). The best is to say here # firstly 'yes', then try and if it is slow, change it back to # 'no'. $SEQINFO_AUTO='yes'; # --- the devices used as a source for generating GIF and PNG files @PNGDEVS = ('PNG', ['hpgl ext=hp2png']); @GIFDEVS = ('GIF', ['colourps ext=ps2gif']); # --- additions since W2H 4.0 ! # --- 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"; # --- Where to find the databases (there is no harm to put here a # non-existing file - it will be quietly ignored). Look inside the # file to see how to update it's content $SITE_DATA = "$YA_ROOT/config/emboss_databases.dbs"; # --- name of the file defining global (site) graphic devices (can be # a comma-delimited list) (values from this file are overwritten # by values from the $W2H_SCRATCH/.w2hmydevices file) $SITEDEVICES = "$YA_ROOT/config/w2h_emboss_sitedevices"; # --- directory with run-time data files $RUNDATA = "$EMBOSS_PREFIX/share/EMBOSS/data"; # --- optional file containing the 'umask' used by W2H processes # this file will be searched in the $W2H_SCRATCH directory ##$W2H_UMASK = ".w2h-umask";
$BIN_ROOT | # relative URL to W2H's CGIs |
$YA_ROOT | # disk path of this directory |
$COMAPP | # disk path to W2H's bin directory (contains w2h.com) |
$DOC_ROOT | # relative URL to W2H's static HTML pages |
$YA_DOC_ROOT | # disk path of this directory |
If extras have been used: | |
@EXTRA_BUTTONS | |
@EXTRA_ITEMS |