X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2Fclarguments.html;h=b9ef30d10eeed65143309d3be5838d0e66101805;hb=b4b901505310c3bdd1809f122abed6799c2fa664;hp=c8a594a2ff8992bb066ca6cc9ee840103413ffb0;hpb=153dd62dc91da13ae732600e6ea55ddbe15eab39;p=jalview.git
diff --git a/help/html/features/clarguments.html b/help/html/features/clarguments.html
index c8a594a..b9ef30d 100644
--- a/help/html/features/clarguments.html
+++ b/help/html/features/clarguments.html
@@ -1,21 +1,24 @@
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ -->
Jalview Command Line Arguments
@@ -30,12 +33,12 @@
- -props FILE |
+ -props FILE/URL |
Use the given Jalview properties file instead
of users default. |
- -features FILE |
+ -features FILE/URL |
|
- -annotations FILE
+ -annotations FILE/URL
|
Add precalculated annotations to the alignment. See Annotation File
@@ -63,7 +66,7 @@
|
- -tree FILE
+ -tree FILE/URL
|
Load the given newick format tree file onto
the alignment
@@ -117,7 +120,7 @@
|
- -groovy FILE
+ -groovy FILE/URL
|
Execute groovy script in FILE (where FILE may be 'STDIN' to read from the standard input) after all other
arguments have been processed
@@ -125,7 +128,7 @@
|
- -vdoc VAMSAS DOCUMENT FILE or URL
+ -vdoc VAMSAS DOCUMENT FILE/URL
|
Import the given vamsas document into a new session. New in 2.5
|
@@ -139,14 +142,6 @@
- -groovy FILE
- |
- Execute groovy script in FILE (where FILE may be 'STDIN' to read from the standard input) after all other
- arguments have been processed
- |
-
-
-
-fasta FILE
|