[Bio] / GBBergeyDB / GBBergeyDB.xml Repository:
ViewVC logotype

Diff of /GBBergeyDB/GBBergeyDB.xml

Parent Directory Parent Directory | Revision Log Revision Log | View Patch Patch

revision 1.3, Thu Jan 18 15:46:58 2007 UTC revision 1.17, Wed Mar 21 00:25:18 2007 UTC
# Line 1  Line 1 
1  <?xml version="1.0" encoding="UTF-8"?>  <?xml version="1.0" encoding="UTF-8"?>
2    
3  <project_space label="GBergeyDB" superspace="GenDB">  <project_space label="GBBergeyDB" superspace="GenDB">
4    
5  <object label="Domain">  <object label="Domain">
6    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
7      <scalar label="taxDOI" type="INT" />
8  </object>  </object>
9    
10  <object label="Phyla">  <object label="Phyla">
11    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
12    <object label="Domain" type="Domain" />    <object label="Domain" type="Domain" />
13      <scalar label="taxDOI" type="INT" />
14  </object>  </object>
15    
16  <object label="Class">  <object label="Class">
17    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
18    <object label="Phyla" type="Phyla" />    <object label="Phyla" type="Phyla" />
19      <scalar label="taxDOI" type="INT" />
20  </object>  </object>
21    
22  <object label="GOrder">  <object label="GOrder">
23    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
24    <object label="Class" type="Class" />    <object label="Class" type="Class" />
25      <scalar label="taxDOI" type="INT" />
26  </object>  </object>
27    
28  <object label="Family">  <object label="Family">
29    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
30    <object label="GOrder" type="GOrder" />    <object label="GOrder" type="GOrder" />
31      <scalar label="taxDOI" type="INT" />
32  </object>  </object>
33    
34  <object label="Genus">  <object label="Genus">
35    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
36    <object label="Family" type="Family" />    <object label="Family" type="Family" />
37    <scalar label="form" type="INT"/>    <scalar label="form" type="INT"/>
38      <scalar label="taxDOI" type="INT" />
39  </object>  </object>
40    
41  <object label="Species">  <object label="Species">
42    <scalar label="name" type="CHAR(250)" />    <scalar label="name" type="CHAR(250)" />
43    <object label="Genus" type="Genus" />    <object label="Genus" type="Genus" />
44      <object label="ScientificSpecies" type="Species" />
45      <scalar label="userflag1" type="INT" />
46      <scalar label="userflag2" type="INT" />
47      <scalar label="userflag3" type="INT" />
48      <scalar label="userflag4" type="INT" />
49      <scalar label="computedscore" type="INT" />
50      <scalar label="score" type="INT" />
51      <scalar label="taxid" type="INT" />
52      <scalar label="taxDOI" type="INT" />
53    </object>
54    
55    <object label="Note">
56      <scalar label="user" type="CHAR(250)" />
57      <scalar label="description" type="CHAR(250)" />
58      <scalar label="timestamp" type="INT" />
59      <scalar label="voting" type="INT" />
60      <scalar label="confidence" type="INT" />
61      <object label="Strain" type="Genome" />
62      <object label="Species" type="Species" />
63    </object>
64    
65    <object label="STScluster">
66      <scalar label="number" type="INT" />
67      <scalar label="seqrepresentation" type="INT" />
68      <object label="representative" type="Genome" />
69      <scalar label="score" type="FLOAT" />
70  </object>  </object>
71    
72    <object label="Genome">    <object label="Genome">
73      <scalar label="name" type="CHAR(250)" />      <scalar label="name" type="CHAR(250)" />
74      <object label="Genus" type="Genus" />    <object label="STScluster" type="STScluster" />
75      <scalar label="STSvalue" type="FLOAT" />
76      <object label="Species" type="Species" />      <object label="Species" type="Species" />
77      <scalar label="strain" type="CHAR(125)" />    <scalar label="typeStrain" type="INT" />
78      <scalar label="sixTeenS" type="TEXT" />
79      <array>
80        <scalar label="strainAliases" type="CHAR(250)" />
81      </array>
82      <scalar label="gramStain" type="CHAR(125)" />      <scalar label="gramStain" type="CHAR(125)" />
83      <scalar label="taxid" type="CHAR(16)" />      <scalar label="taxid" type="CHAR(16)" />
84      <scalar label="figid" type="CHAR(16)" />
85      <scalar label="ncNumber" type="CHAR(125)" />      <scalar label="ncNumber" type="CHAR(125)" />
86      <scalar label="ncbiNumber" type="INT" />      <scalar label="ncbiNumber" type="INT" />
87      <scalar label="CMRAlias" type="CHAR(125)" />      <scalar label="CMRAlias" type="CHAR(125)" />
88      <scalar label="CMRID" type="INT" />      <scalar label="CMRID" type="INT" />
89      <scalar label="goldstamp" type="CHAR(125)" />
90      <scalar label="carbon" type="CHAR(250)" />      <scalar label="carbon" type="CHAR(250)" />
91      <scalar label="chromosomeType" type="CHAR(250)" />      <scalar label="chromosomeType" type="CHAR(250)" />
 <!--  
     <object label="Contact" type="Contact" />  
     <array>  
       <object label="FundingOrganisation" type="Institution" />  
     </array>  
     <array>  
       <object label="GenomeDatabase" type="GenomeDatabase" />  
     </array>  
     <array>  
       <object label="Institution" type="Institution" />  
     </array>  
 -->  
92      <scalar label="desease" type="INT" />      <scalar label="desease" type="INT" />
93      <scalar label="energy" type="CHAR(250)" />      <scalar label="energy" type="CHAR(250)" />
94      <scalar label="oxygen" type="CHAR(250)" />      <scalar label="oxygen" type="CHAR(250)" />
# Line 73  Line 100 
100      <scalar label="extremophile" type="CHAR(250)" />      <scalar label="extremophile" type="CHAR(250)" />
101      <scalar label="shape" type="CHAR(125)" />      <scalar label="shape" type="CHAR(125)" />
102      <scalar label="width" type="FLOAT" />      <scalar label="width" type="FLOAT" />
 <!--    <scalar label="genomeSize" type="INT" /> -->  
 <!--    <scalar label="noORFs" type="INT" /> -->  
103      <scalar label="motile" type="CHAR(125)" />      <scalar label="motile" type="CHAR(125)" />
104      <scalar label="numberChromosomes" type="INT" />      <scalar label="numberChromosomes" type="INT" />
105      <scalar label="totalReplicons" type="INT" />      <scalar label="totalReplicons" type="INT" />
106      <scalar label="hxh" type="INT" />      <scalar label="hxh" type="INT" />
107      <scalar label="sequencingStatus" type="CHAR(250)" />      <scalar label="sequencingStatus" type="CHAR(250)" />
108      <scalar label="orderOfPublication" type="INT" />      <scalar label="orderOfPublication" type="INT" />
109  <!--    <object label="Publication" type="Publication" /> -->    <scalar label="InBergey" type="INT" />
110      <array>    <scalar label="InGOLD" type="INT" />
111        <scalar label="addFeatures" type="CHAR(250)" />    <scalar label="InNCBI" type="INT" />
112      </array>    <scalar label="InDSMZ" type="INT" />
113      <scalar label="InCCUG" type="INT" />
114      <scalar label="InSEED" type="INT" />
115      <scalar label="InGenomeData" type="INT" />
116      <scalar label="InSTS" type="INT" />
117  <!-- added from andi's schema from now on -->  <!-- added from andi's schema from now on -->
118      <scalar label="genetic_code" type="CHAR(255)" /> <!-- Genetic code of an organism --> <!--  (describing translation and use of start codons) -->      <scalar label="genetic_code" type="CHAR(255)" /> <!-- Genetic code of an organism --> <!--  (describing translation and use of start codons) -->
119      <scalar label="estiGenomeSize" type="INT" />      <scalar label="estiGenomeSize" type="INT" />
120      <scalar label="cultivationStatus" type="CHAR(255)" /> <!-- Flag for the procedure of cultivating an organism, it can be e.g. easy, hard, mediumm, slow ... --> <!-- Flags have to be discussed -->      <scalar label="cultivationStatus" type="CHAR(255)" /> <!-- Flag for the procedure of cultivating an organism, it can be e.g. easy, hard, mediumm, slow ... --> <!-- Flags have to be discussed -->
121      <array>
122        <scalar label="addFeatures" type="CHAR(250)" />
123      </array>
124    </object>    </object>
125    
   
126  <object label="GenomeSequence">  <object label="GenomeSequence">
127      <object label="Genome" type="Genome" mandatory="1" /> <!--  Organism a sequence belongs to -->      <object label="Genome" type="Genome" mandatory="1" /> <!--  Organism a sequence belongs to -->
128      <scalar label="version" type="int" /> <!-- Version number of the sequence -->      <scalar label="version" type="int" /> <!-- Version number of the sequence -->
# Line 126  Line 157 
157  </object>  </object>
158    
159    
160    <object label="GenomeAlias">
161      <scalar label="name" type="CHAR(250)" />
162      <scalar label="scientificName" type="CHAR(250)" />
163      <scalar label="taxid" type="INT" />
164      <scalar label="ident" type="INT" />
165      <scalar label="aliasType" type="CHAR(250)" />
166    </object>
167    
168  <object label="Publication">  <object label="Publication">
169    <scalar label="pubmed" type="INT" />    <scalar label="pubmed" type="INT" />
170    <scalar label="url" type="CHAR(250)" />    <scalar label="url" type="CHAR(250)" />

Legend:
Removed from v.1.3  
changed lines
  Added in v.1.17

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3