X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2Furllinks.html;h=56469e5967e4e5c3d63ec869b49aaf6f34982ddf;hb=88141010d441b5fa5fcf43bb3dcbecbbc1721139;hp=da5d7ddd42c76bd03bfaf89e4c44881834b4a91e;hpb=3c2ee3e1b9c507c7dfa550bc8546a43ff305f85a;p=jalview.git
diff --git a/help/html/webServices/urllinks.html b/help/html/webServices/urllinks.html
index da5d7dd..56469e5 100644
--- a/help/html/webServices/urllinks.html
+++ b/help/html/webServices/urllinks.html
@@ -57,12 +57,12 @@
Adding additional links
You can configure your own
links via the Jalview Preferences
dialog. Jalview also provides persistent URLs for many common
- bioinformatics databases. These links are downloaded by Jalview from
+ bioinformatics databases (since 2.10.2). These links are downloaded by Jalview from
the identifiers.org website, and the names and URLs are not
user editable.
- Creating your own URL link URL links are specified as a
+ Creating your own URL link
URL links are specified as a
template containing special tokens that Jalview will replace with
the Sequence ID or Database Accession of the sequence when you
double click on its ID or open it's Link submenu.
@@ -73,10 +73,18 @@
Swissprot = http://www.expasy.org/uniprot/$SEQUENCE_ID$
Links will also be made for any database cross references associated
- with the sequence where the database name exactly matches a URL link
- name. In this case, the $DB_ACCESSION$ string will be replaced with
+ with the sequence for any link templates whose name begins with the database name.
+ In this case, the $DB_ACCESSION$ string will be replaced with
the accession string for the database cross-reference, rather than
the sequence ID for the sequence (since Jalview 2.10.1).
+
For example: to create a link for viewing MACiE records
+ from PDB Entries, create a new custom link entry with the name
+ "PDB in MACiE", and link URL template:
+ https://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/MACiE/index.pl?query_pdb=1&pdb=$DBACCESSION$
+
The sequence ID popup menu for seuqences with a PDB entry
+ will now show 'PDB in MACiE|1xyz..' links in the links
+ submenu.
+