JAL-4036 JAL-4012 note about Uniprot FTS workaround in search documentation, and...

[jalview.git] / help / help / html / features / jvlfiles.html

diff --git a/help/help/html/features/jvlfiles.html b/help/help/html/features/jvlfiles.html
index 15df5d4..e23af30 100644 (file)
--- a/help/help/html/features/jvlfiles.html
+++ b/help/help/html/features/jvlfiles.html
@@ -39,19 +39,19 @@
     text editor and save them as a file with the extension '.jvl'. To
     test, open your saved .jvl file via the OSX File Chooser or Windows
     file explorer, or pass it to Jalview via the <a
-      href="../commandline.html">command line</a>
+      href="./commandline.html">command line</a>
   </p>
   <p>
     <strong>Passing command line arguments</strong>
   <pre>
 # Jalview Launch File
 # Please install the Jalview Desktop from 
-# http://www.jalview.org/getdown/release
+# https://www.jalview.org/getdown/release
 # and then try to open this file again
 jalview.apparg=-open
-jalview.apparg=http://www.jalview.org/examples/jpred_msa.fasta
+jalview.apparg=https://www.jalview.org/examples/jpred_msa.fasta
 jalview.apparg=-annotations
-jalview.apparg=http://www.jalview.org/examples/jpred_msa.seq.concise
+jalview.apparg=https://www.jalview.org/examples/jpred_msa.seq.concise
 jalview.apparg=-colour
 jalview.apparg=Clustal
 </pre>
@@ -62,9 +62,9 @@ jalview.apparg=Clustal
 # Please install the Jalview Desktop from 
 # http://www.jalview.org/getdown/release
 # and then try to open this file again
-appbase=http://www.jalview.org/old/v2_10_5/
+appbase=https://www.jalview.org/getdown/archive/2_10_5/
 </pre>
   For security, the Jalview application will only allow
-  <em>appbase</em> URLs from www.jalview.org, or your local file system.
+  <em>appbase</em> URLs from www.jalview.org.
 </body>
 </html>