X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Ffeatures%2Fclarguments-reference.html;h=60951d8303793a643a74e28a628115a5450b59ef;hb=8a2a0cda7067530f8481c2aec203e18d555f2dfd;hp=0221a6777e79c028fa6e6634e194460c938f5c15;hpb=65ed1da9a1710a9ce132c7edfce54955dc1ddf99;p=jalview.git diff --git a/help/help/html/features/clarguments-reference.html b/help/help/html/features/clarguments-reference.html index 0221a67..60951d8 100644 --- a/help/help/html/features/clarguments-reference.html +++ b/help/help/html/features/clarguments-reference.html @@ -65,10 +65,10 @@
‑‑help‑all
‑‑headless / ‑‑noheadless
‑‑headless
--output
, --image
or --structureimage
) then headless mode will be assumed. If you don't want this behaviour use --noheadless
or --gui
.
+ If you use a command line argument to specify an output file of some kind (--output
, --image
or --structureimage
) then headless mode will be assumed. If you don't want this behaviour use --gui
.
‑‑title "string""
‑‑title "string"
‑‑colour name
clustal
,
t-coffee-scores
,
sequence-id
.
+ ‑‑colour "D,E=red; K,R,H=0022FF; C,c=yellow"
phylip
(phy
),
jalview
(jvp, jar
).
+ -
(a single hyphen). In this case all STDOUT messages will instead go to STDERR. If no format
is supplied then Fasta will be assumed.
format=name