still refactoring the rangeType and features/annotation elements.

[vamsas.git] / schemas / document.xml

diff --git a/schemas/document.xml b/schemas/document.xml
index 9bdefd8..860934a 100644 (file)
--- a/schemas/document.xml
+++ b/schemas/document.xml
@@ -7,6 +7,7 @@
     <Provenance xmlns="http://www.vamsas.org">
         <entry>
             <User>Jim</User>
+            <App>Jalview</App>
             <Action>updated the xml schema</Action>
             <Date>2006-01-17</Date>
         </entry>
@@ -15,39 +16,39 @@
     <VAMSAS xmlns="http://www.vamsas.org" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.vamsas.org
         http://www.vamsas.ac.uk/build/VamsasClient/schemas/vamsas.xsd">
         <DataSet>
-            <Sequence start="1" end="167" id="a1127235554296">
+            <Sequence start="1" end="167" dictionary="vamsas:aa" id="a1127235554296">
                 <sequence>KTAIITGGSRGIGKSIAIKLGKLGASIVLNYRNNTDALKNTIRELEDLNINVIAVQGDISNYKECEKIIKAALDKFNGIDILVNNAGITADNLILRMKEEEFDKVIETNLKGTFNCVKHCIPMIKRRYGKIINISSVVGVAGNVGQCNYAAAKAGVIGFTKSLAKEL</sequence>
                 <name>Q899P0</name>
             </Sequence>
-            <Sequence start="1" end="168" id="a1127235554297">
+            <Sequence start="1" end="168" dictionary="vamsas:aa" id="a1127235554297">
                 <sequence>KIAIVTGASSGIGRAIAFKLASRGANLILGDVKIDELRKVAEEIAKETKVKVIPLYVNVGDFNSTKEFYNKGISELGVDYVDILVNNAGINRDALFVKMTYEQWDEVIKVDLYSMFNMTKQVVDMVKRNYGRIINISSLSWLGNIGQANYSAAKAGVIGFTKTLAREL</sequence>
                 <name>Q972M3</name>
             </Sequence>
-            <Sequence start="1" end="167" id="a1127235554298">
+            <Sequence start="1" end="167" dictionary="vamsas:aa" id="a1127235554298">
                 <sequence>KVIVITGASSGIGEQVAMQVAEQGATPVLMARTEEKLKALADKIKETYNTPCYYYVLDVSEETEVQSVFSKVLQEVGRIDILVNNAGFGIFKTFEDASMDEVKDMFQVNVFGLVACTKAVLPYMVKRNGHIINIASLAGKIATPKSSAYAATKHAVLGFTNSLRMEL</sequence>
                 <name>Q81M93</name>
             </Sequence>
-            <Sequence start="1" end="167" id="a1127235554299">
+            <Sequence start="1" end="167" dictionary="vamsas:aa" id="a1127235554299">
                 <sequence>KIALVTGAMGGLGTAICQALAKDGCIVAANCLPNFEPAAAWLGQQEALGFKFYVAEGDVSDFESCKAMVAKIEADLGPVDILVNNAGITRDKFFAKMDKAQWDAVIATNLSSLFNVTQQVSPKMERGWGRIINISSVNGVKGQAGQTNYSAAKAGVIGFTKALAAEL</sequence>
                 <name>NODG_AZOBR</name>
             </Sequence>
-            <Sequence start="1" end="166" id="a1127235554300">
+            <Sequence start="1" end="166" dictionary="vamsas:aa" id="a1127235554300">
                 <sequence>QTAVVTGGGKGIGRAICLALAREGADIVIAARTEKDIRETARMVEKEGRKALPVSTDIRVEEDVENMISEAVDAFGRIDILVNNAGVAYRKYMVETSTEEYDNIMDTNLKGMFFCTKYALPYLLKREGRIINISSGAGKHGIPKLSIYSASKFAVIGFTESIAYEI</sequence>
                 <name>Q8PS57</name>
             </Sequence>
-            <Sequence start="1" end="167" id="a1127235554301">
+            <Sequence start="1" end="167" dictionary="vamsas:aa" id="a1127235554301">
                 <sequence>KTAIVTGAARGIGKAIALKFAAEGANIAFTDLVIDENAEKTRVELEAMGVKAKGYASNAANFEDTAKVVEEIHKDFGRIDILVNNAGITRDGLMMRMSEQQWDMVINVNLKSAFNFIHACTPMMRQKAGSIINMASVVGVHGNAGQANYAASKAGMIALAKSIAQEL</sequence>
                 <name>Q8A195</name>
             </Sequence>
-            <Sequence start="1" end="164" id="a1127235554302">
+            <Sequence start="1" end="164" dictionary="vamsas:aa" id="a1127235554302">
                 <sequence>KVVVVTGAGSGIGEATAKRFAHEGASVVLVGRNQEKLAKVAAQLKGAEHLIRATDVADLTDVEALFKEVAERFGRLDVLVNNAGVVKSGKVTELGVEDWKAVMSVDLDGVFYCTRTAMPALIASKGNIINVSSVSGLGGDWGMSFYNAAKGAITNFTRALALD</sequence>
                 <name>Q888G8</name>
             </Sequence>
-            <Sequence start="1" end="164" id="a1127235554303">
+            <Sequence start="1" end="164" dictionary="vamsas:aa" id="a1127235554303">
                 <sequence>KVALVTGAANGIGLAIAERLYQEGATLALADWNEEQLAIVIEQFDSARVYAQKVDVSDPEQVQALVRKTVERFGRLDILVNNAGIHIPGTVLECSVQDWRRIASVNIDGVVYCAMHALPELIKTRGCMVNTASVSGLGGDWGAAFYCATKGAVVNFTRALALD</sequence>
                 <name>Q9KRP5</name>
             </Sequence>
-            <Sequence start="1" end="163" id="a1127235554304">
+            <Sequence start="1" end="163" dictionary="vamsas:aa" id="a1127235554304">
                 <sequence>KIALVTGASRGIGRAIAELLVERGATVIGTATSEGGAAAISEYLGENGKGLALNVTDVESIEATLKAINDEFGAIDILVNNAGITRDNLLMRMKDDEWNDIINTNLTPIYRMSKAVLRMMKKRAGRIINVGSVVGTMGNAGQTNYAAAKAGVIGFTKSMAREV</sequence>
                 <name>Q87N22</name>
             </Sequence>
@@ -91,6 +92,7 @@
                 <Provenance>
                     <entry>
                         <User>jim</User>
+                        <App>Jalview</App>
                         <Action>edited</Action>
                         <Date>2005-12-21</Date>
                     </entry>
@@ -99,17 +101,24 @@
             <Provenance>
                 <entry>
                     <User>jim</User>
+                    <App>Jalview</App>
                     <Action>edited</Action>
                     <Date>2005-11-21</Date>
                 </entry>
             </Provenance>
         </DataSet>
     </VAMSAS>
-    <ApplicationData xmlns="http://www.vamsas.org" version="" name="" urn="">
+    <ApplicationData xmlns="http://www.vamsas.org" version="" name="">
         <dataReference>name of accompanying jar entry containing data</dataReference> <!-- alternative is base64 encoded string in <data></data> -->
         <User fullname="a user" organization="probably very little">
             <dataReference>another accompanying jar entry or the data tag with embedded data.</dataReference>
         </User>
+        <Common><dataReference>another bogus reference</dataReference></Common>
     </ApplicationData>
+    <ApplicationData xmlns="http://www.vamsas.org" version="alpha" name="hmm">
+        <data>somedata</data>
+        <Instance urn="hmm://myInstancetype"><dataReference>some reference</dataReference></Instance>
+    </ApplicationData>
+    
 </VamsasDocument>