t/data/efetch_seq.wsdl

   1 <?xml version="1.0"?>
   2 <wsdl:definitions
   3     xmlns:xs="http://www.w3.org/2001/XMLSchema"
   4     xmlns:soap="http://schemas.xmlsoap.org/wsdl/soap/"
   5     xmlns:s0="http://www.ncbi.nlm.nih.gov/soap/eutils/"
   6     xmlns:wsdl="http://schemas.xmlsoap.org/wsdl/"
   7     xmlns="http://schemas.xmlsoap.org/wsdl/"
   8     targetNamespace="http://www.ncbi.nlm.nih.gov/soap/eutils/"
   9     xmlns:nsef="http://www.ncbi.nlm.nih.gov/soap/eutils/efetch_seq"
  10 >
  11 <!--    version="2.0" -->
  12
  13     <types>
  14 <xs:schema
  15     xmlns:tns="http://www.ncbi.nlm.nih.gov/soap/eutils/efetch_seq"
  16     xmlns:xs="http://www.w3.org/2001/XMLSchema"
  17     xmlns:ncbi="http://www.ncbi.nlm.nih.gov"
  18     targetNamespace="http://www.ncbi.nlm.nih.gov/soap/eutils/efetch_seq"
  19     elementFormDefault="qualified"
  20     >
  21 <!--    version="2.0" -->
  22 <xs:element name="TSeq">
  23   <xs:complexType>
  24     <xs:sequence>
  25       <xs:element name="TSeq_seqtype">
  26         <xs:complexType>
  27           <xs:attribute name="value" use="required">
  28             <xs:simpleType>
  29               <xs:restriction base="xs:string">
  30                 <xs:enumeration value="nucleotide"/>
  31                 <xs:enumeration value="protein"/>
  32               </xs:restriction>
  33             </xs:simpleType>
  34           </xs:attribute>
  35         </xs:complexType>
  36       </xs:element>
  37       <xs:element name="TSeq_gi" type="xs:integer" minOccurs="0"/>
  38       <xs:element name="TSeq_accver" type="xs:string" minOccurs="0"/>
  39       <xs:element name="TSeq_sid" type="xs:string" minOccurs="0"/>
  40       <xs:element name="TSeq_local" type="xs:string" minOccurs="0"/>
  41       <xs:element name="TSeq_taxid" type="xs:integer" minOccurs="0"/>
  42       <xs:element name="TSeq_orgname" type="xs:string" minOccurs="0"/>
  43       <xs:element name="TSeq_defline" type="xs:string"/>
  44       <xs:element name="TSeq_length" type="xs:integer"/>
  45       <xs:element name="TSeq_sequence" type="xs:string"/>
  46     </xs:sequence>
  47   </xs:complexType>
  48 </xs:element>
  49
  50 <!-- a bunch of them -->
  51 <xs:element name="TSeqSet">
  52   <xs:complexType>
  53     <xs:sequence minOccurs="0" maxOccurs="unbounded">
  54       <xs:element ref="tns:TSeq"/>
  55     </xs:sequence>
  56   </xs:complexType>
  57 </xs:element>
  58
  59
  60 <!--
  61 ********
  62   GBSeq represents the elements in a GenBank style report
  63     of a sequence with some small additions to structure and support
  64     for protein (GenPept) versions of GenBank format as seen in
  65     Entrez. While this represents the simplification, reduction of
  66     detail, and flattening to a single sequence perspective of GenBank
  67     format (compared with the full ASN.1 or XML from which GenBank and
  68     this format is derived at NCBI), it is presented in ASN.1 or XML for
  69     automated parsing and processing. It is hoped that this compromise
  70     will be useful for those bulk processing at the GenBank format level
  71     of detail today. Since it is a compromise, a number of pragmatic
  72     decisions have been made.
  73
  74   In pursuit of simplicity and familiarity a number of
  75     fields do not have full substructure defined here where there is
  76     already a standard GenBank format string. For example:
  77
  78     Date  DD-Mon-YYYY
  79     Authors   LastName, Intials (with periods)
  80    Journal   JounalName Volume (issue), page-range (year)
  81    FeatureLocations as per GenBank feature table, but FeatureIntervals
  82     may also be provided as a convenience
  83    FeatureQualifiers  as per GenBank feature table
  84    Primary has a string that represents a table to construct
  85     a third party (TPA) sequence.
  86    other-seqids can have strings with the "vertical bar format" sequence
  87     identifiers used in BLAST for example, when they are non-genbank types.
  88     Currently in GenBank format you only see GI, but there are others, like
  89     patents, submitter clone names, etc which will appear here, as they
  90     always have in the ASN.1 format, and full XML format.
  91    source-db is a formatted text block for peptides in GenPept format that
  92     carries information from the source protein database.
  93
  94   There are also a number of elements that could have been
  95    more exactly specified, but in the interest of simplicity
  96    have been simply left as options. For example..
  97
  98   accession and accession.version will always appear in a GenBank record
  99    they are optional because this format can also be used for non-GenBank
 100    sequences, and in that case will have only "other-seqids".
 101
 102   sequences will normally all have "sequence" filled in. But contig records
 103     will have a "join" statement in the "contig" slot, and no "sequence".
 104     We also may consider a retrieval option with no sequence of any kind
 105      and no feature table to quickly check minimal values.
 106
 107   a reference may have an author list, or be from a consortium, or both.
 108
 109   some fields, such as taxonomy, do appear as separate elements in GenBank
 110     format but without a specific linetype (in GenBank format this comes
 111     under ORGANISM). Another example is the separation of primary accession
 112     from the list of secondary accessions. In GenBank format primary
 113     accession is just the first one on the list that includes all secondaries
 114     after it.
 115
 116   create-date deserves special comment. The date you see on the right hand
 117     side of the LOCUS line in GenBank format is actually the last date the
 118     the record was modified (or the update-date). The date the record was
 119     first submitted to GenBank appears in the first submission citation in
 120     the reference section. Internally in the databases and ASN.1 NCBI keeps
 121     the first date the record was released into the sequence database at
 122     NCBI as create-date. For records from EMBL, which supports create-date,
 123     it is the date provided by EMBL. For DDBJ records, which do not supply
 124     a create-date (same as GenBank format) the create-date is the first date
 125     NCBI saw the record from DDBJ. For older GenBank records, before NCBI
 126     took responsibility for GenBank, it is just the first date NCBI saw the
 127     record. Create-date can be very useful, so we expose it here, but users
 128     must understand it is only an approximation and comes from many sources,
 129     and with many exceptions and caveats. It does NOT tell you the first
 130     date the public might have seen this record and thus is NOT an accurate
 131     measure for legal issues of precedence.
 132
 133 ********
 134 -->
 135 <xs:element name="GBSet">
 136   <xs:complexType>
 137     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 138       <xs:element ref="tns:GBSeq"/>
 139     </xs:sequence>
 140   </xs:complexType>
 141 </xs:element>
 142
 143 <xs:element name="GBSeq">
 144   <xs:complexType>
 145     <xs:sequence>
 146       <xs:element name="GBSeq_locus" type="xs:string"/>
 147       <xs:element name="GBSeq_length" type="xs:integer"/>
 148       <xs:element name="GBSeq_strandedness" type="xs:string" minOccurs="0"/>
 149       <xs:element name="GBSeq_moltype" type="xs:string"/>
 150       <xs:element name="GBSeq_topology" type="xs:string" minOccurs="0"/>
 151       <xs:element name="GBSeq_division" type="xs:string"/>
 152       <xs:element name="GBSeq_update-date" type="xs:string"/>
 153       <xs:element name="GBSeq_create-date" type="xs:string" minOccurs="0"/>
 154       <xs:element name="GBSeq_update-release" type="xs:string" minOccurs="0"/>
 155       <xs:element name="GBSeq_create-release" type="xs:string" minOccurs="0"/>
 156       <xs:element name="GBSeq_definition" type="xs:string"/>
 157       <xs:element name="GBSeq_primary-accession" type="xs:string" minOccurs="0"/>
 158       <xs:element name="GBSeq_entry-version" type="xs:string" minOccurs="0"/>
 159       <xs:element name="GBSeq_accession-version" type="xs:string" minOccurs="0"/>
 160       <xs:element name="GBSeq_other-seqids" minOccurs="0">
 161         <xs:complexType>
 162           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 163             <xs:element ref="tns:GBSeqid"/>
 164           </xs:sequence>
 165         </xs:complexType>
 166       </xs:element>
 167       <xs:element name="GBSeq_secondary-accessions" minOccurs="0">
 168         <xs:complexType>
 169           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 170             <xs:element ref="tns:GBSecondary-accn"/>
 171           </xs:sequence>
 172         </xs:complexType>
 173       </xs:element>
 174       <xs:element name="GBSeq_project" type="xs:string" minOccurs="0"/>
 175       <xs:element name="GBSeq_keywords" minOccurs="0">
 176         <xs:complexType>
 177           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 178             <xs:element ref="tns:GBKeyword"/>
 179           </xs:sequence>
 180         </xs:complexType>
 181       </xs:element>
 182       <xs:element name="GBSeq_segment" type="xs:string" minOccurs="0"/>
 183       <xs:element name="GBSeq_source" type="xs:string" minOccurs="0"/>
 184       <xs:element name="GBSeq_organism" type="xs:string" minOccurs="0"/>
 185       <xs:element name="GBSeq_taxonomy" type="xs:string" minOccurs="0"/>
 186       <xs:element name="GBSeq_references" minOccurs="0">
 187         <xs:complexType>
 188           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 189             <xs:element ref="tns:GBReference"/>
 190           </xs:sequence>
 191         </xs:complexType>
 192       </xs:element>
 193       <xs:element name="GBSeq_comment" type="xs:string" minOccurs="0"/>
 194       <xs:element name="GBSeq_tagset" minOccurs="0">
 195         <xs:complexType>
 196           <xs:sequence>
 197             <xs:element ref="tns:GBTagset"/>
 198           </xs:sequence>
 199         </xs:complexType>
 200       </xs:element>
 201       <xs:element name="GBSeq_primary" type="xs:string" minOccurs="0"/>
 202       <xs:element name="GBSeq_source-db" type="xs:string" minOccurs="0"/>
 203       <xs:element name="GBSeq_database-reference" type="xs:string" minOccurs="0"/>
 204       <xs:element name="GBSeq_feature-table" minOccurs="0">
 205         <xs:complexType>
 206           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 207             <xs:element ref="tns:GBFeature"/>
 208           </xs:sequence>
 209         </xs:complexType>
 210       </xs:element>
 211 <!-- Optional for other dump forms -->
 212       <xs:element name="GBSeq_sequence" type="xs:string" minOccurs="0"/>
 213       <xs:element name="GBSeq_contig" type="xs:string" minOccurs="0"/>
 214     </xs:sequence>
 215   </xs:complexType>
 216 </xs:element>
 217
 218 <xs:element name="GBSecondary-accn" type="xs:string"/>
 219
 220 <xs:element name="GBSeqid" type="xs:string"/>
 221
 222 <xs:element name="GBKeyword" type="xs:string"/>
 223
 224 <xs:element name="GBAuthor" type="xs:string"/>
 225
 226 <xs:element name="GBReference">
 227   <xs:complexType>
 228     <xs:sequence>
 229       <xs:element name="GBReference_reference" type="xs:string"/>
 230       <xs:element name="GBReference_position" type="xs:string" minOccurs="0"/>
 231       <xs:element name="GBReference_authors" minOccurs="0">
 232         <xs:complexType>
 233           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 234             <xs:element ref="tns:GBAuthor"/>
 235           </xs:sequence>
 236         </xs:complexType>
 237       </xs:element>
 238       <xs:element name="GBReference_consortium" type="xs:string" minOccurs="0"/>
 239       <xs:element name="GBReference_title" type="xs:string" minOccurs="0"/>
 240       <xs:element name="GBReference_journal" type="xs:string"/>
 241       <xs:element name="GBReference_xref" minOccurs="0">
 242         <xs:complexType>
 243           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 244             <xs:element ref="tns:GBXref"/>
 245           </xs:sequence>
 246         </xs:complexType>
 247       </xs:element>
 248       <xs:element name="GBReference_pubmed" type="xs:integer" minOccurs="0"/>
 249       <xs:element name="GBReference_remark" type="xs:string" minOccurs="0"/>
 250     </xs:sequence>
 251   </xs:complexType>
 252 </xs:element>
 253
 254 <xs:element name="GBXref">
 255   <xs:complexType>
 256     <xs:sequence>
 257       <xs:element name="GBXref_dbname" type="xs:string"/>
 258       <xs:element name="GBXref_id" type="xs:string"/>
 259     </xs:sequence>
 260   </xs:complexType>
 261 </xs:element>
 262
 263 <xs:element name="GBTagset">
 264   <xs:complexType>
 265     <xs:sequence>
 266       <xs:element name="GBTagset_authority" type="xs:string" minOccurs="0"/>
 267       <xs:element name="GBTagset_version" type="xs:string" minOccurs="0"/>
 268       <xs:element name="GBTagset_url" type="xs:string" minOccurs="0"/>
 269       <xs:element name="GBTagset_tags" minOccurs="0">
 270         <xs:complexType>
 271           <xs:sequence>
 272             <xs:element ref="tns:GBTags"/>
 273           </xs:sequence>
 274         </xs:complexType>
 275       </xs:element>
 276     </xs:sequence>
 277   </xs:complexType>
 278 </xs:element>
 279
 280 <xs:element name="GBTags">
 281   <xs:complexType>
 282     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 283       <xs:element ref="tns:GBTag"/>
 284     </xs:sequence>
 285   </xs:complexType>
 286 </xs:element>
 287
 288 <xs:element name="GBTag">
 289   <xs:complexType>
 290     <xs:sequence>
 291       <xs:element name="GBTag_name" type="xs:string" minOccurs="0"/>
 292       <xs:element name="GBTag_value" type="xs:string" minOccurs="0"/>
 293       <xs:element name="GBTag_unit" type="xs:string" minOccurs="0"/>
 294     </xs:sequence>
 295   </xs:complexType>
 296 </xs:element>
 297
 298 <xs:element name="GBFeature">
 299   <xs:complexType>
 300     <xs:sequence>
 301       <xs:element name="GBFeature_key" type="xs:string"/>
 302       <xs:element name="GBFeature_location" type="xs:string"/>
 303       <xs:element name="GBFeature_intervals" minOccurs="0">
 304         <xs:complexType>
 305           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 306             <xs:element ref="tns:GBInterval"/>
 307           </xs:sequence>
 308         </xs:complexType>
 309       </xs:element>
 310       <xs:element name="GBFeature_operator" type="xs:string" minOccurs="0"/>
 311       <xs:element name="GBFeature_partial5" minOccurs="0">
 312         <xs:complexType>
 313           <xs:attribute name="value" use="required">
 314             <xs:simpleType>
 315               <xs:restriction base="xs:string">
 316                 <xs:enumeration value="true"/>
 317                 <xs:enumeration value="false"/>
 318               </xs:restriction>
 319             </xs:simpleType>
 320           </xs:attribute>
 321         </xs:complexType>
 322       </xs:element>
 323       <xs:element name="GBFeature_partial3" minOccurs="0">
 324         <xs:complexType>
 325           <xs:attribute name="value" use="required">
 326             <xs:simpleType>
 327               <xs:restriction base="xs:string">
 328                 <xs:enumeration value="true"/>
 329                 <xs:enumeration value="false"/>
 330               </xs:restriction>
 331             </xs:simpleType>
 332           </xs:attribute>
 333         </xs:complexType>
 334       </xs:element>
 335       <xs:element name="GBFeature_quals" minOccurs="0">
 336         <xs:complexType>
 337           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 338             <xs:element ref="tns:GBQualifier"/>
 339           </xs:sequence>
 340         </xs:complexType>
 341       </xs:element>
 342     </xs:sequence>
 343   </xs:complexType>
 344 </xs:element>
 345
 346 <xs:element name="GBInterval">
 347   <xs:complexType>
 348     <xs:sequence>
 349       <xs:element name="GBInterval_from" type="xs:integer" minOccurs="0"/>
 350       <xs:element name="GBInterval_to" type="xs:integer" minOccurs="0"/>
 351       <xs:element name="GBInterval_point" type="xs:integer" minOccurs="0"/>
 352       <xs:element name="GBInterval_iscomp" minOccurs="0">
 353         <xs:complexType>
 354           <xs:attribute name="value" use="required">
 355             <xs:simpleType>
 356               <xs:restriction base="xs:string">
 357                 <xs:enumeration value="true"/>
 358                 <xs:enumeration value="false"/>
 359               </xs:restriction>
 360             </xs:simpleType>
 361           </xs:attribute>
 362         </xs:complexType>
 363       </xs:element>
 364       <xs:element name="GBInterval_interbp" minOccurs="0">
 365         <xs:complexType>
 366           <xs:attribute name="value" use="required">
 367             <xs:simpleType>
 368               <xs:restriction base="xs:string">
 369                 <xs:enumeration value="true"/>
 370                 <xs:enumeration value="false"/>
 371               </xs:restriction>
 372             </xs:simpleType>
 373           </xs:attribute>
 374         </xs:complexType>
 375       </xs:element>
 376       <xs:element name="GBInterval_accession" type="xs:string"/>
 377     </xs:sequence>
 378   </xs:complexType>
 379 </xs:element>
 380
 381 <xs:element name="GBQualifier">
 382   <xs:complexType>
 383     <xs:sequence>
 384       <xs:element name="GBQualifier_name" type="xs:string"/>
 385       <xs:element name="GBQualifier_value" type="xs:string" minOccurs="0"/>
 386     </xs:sequence>
 387   </xs:complexType>
 388 </xs:element>
 389
 390 <xs:element name="GBTagsetRules">
 391   <xs:complexType>
 392     <xs:sequence>
 393       <xs:element name="GBTagsetRules_authority" type="xs:string" minOccurs="0"/>
 394       <xs:element name="GBTagsetRules_version" type="xs:string" minOccurs="0"/>
 395       <xs:element name="GBTagsetRules_mandatorytags" minOccurs="0">
 396         <xs:complexType>
 397           <xs:sequence>
 398             <xs:element ref="tns:GBTagNames"/>
 399           </xs:sequence>
 400         </xs:complexType>
 401       </xs:element>
 402       <xs:element name="GBTagsetRules_optionaltags" minOccurs="0">
 403         <xs:complexType>
 404           <xs:sequence>
 405             <xs:element ref="tns:GBTagNames"/>
 406           </xs:sequence>
 407         </xs:complexType>
 408       </xs:element>
 409       <xs:element name="GBTagsetRules_uniquetags" minOccurs="0">
 410         <xs:complexType>
 411           <xs:sequence>
 412             <xs:element ref="tns:GBTagNames"/>
 413           </xs:sequence>
 414         </xs:complexType>
 415       </xs:element>
 416       <xs:element name="GBTagsetRules_extensible" minOccurs="0">
 417         <xs:complexType>
 418           <xs:attribute name="value" use="required">
 419             <xs:simpleType>
 420               <xs:restriction base="xs:string">
 421                 <xs:enumeration value="true"/>
 422                 <xs:enumeration value="false"/>
 423               </xs:restriction>
 424             </xs:simpleType>
 425           </xs:attribute>
 426         </xs:complexType>
 427       </xs:element>
 428     </xs:sequence>
 429   </xs:complexType>
 430 </xs:element>
 431
 432 <xs:element name="GBTagNames">
 433   <xs:complexType>
 434     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 435       <xs:element name="GBTagNames_E" type="xs:string"/>
 436     </xs:sequence>
 437   </xs:complexType>
 438 </xs:element>
 439
 440 <xs:element name="GBTagsetRuleSet">
 441   <xs:complexType>
 442     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 443       <xs:element ref="tns:GBTagsetRules"/>
 444     </xs:sequence>
 445   </xs:complexType>
 446 </xs:element>
 447
 448
 449 <!--
 450   INSDSeq provides the elements of a sequence as presented in the
 451     GenBank/EMBL/DDBJ-style flatfile formats, with a small amount of
 452     additional structure.
 453     Although this single perspective of the three flatfile formats
 454     provides a useful simplification, it hides to some extent the
 455     details of the actual data underlying those formats. Nevertheless,
 456     the XML version of INSD-Seq is being provided with
 457     the hopes that it will prove useful to those who bulk-process
 458     sequence data at the flatfile-format level of detail. Further
 459     documentation regarding the content and conventions of those formats
 460     can be found at:
 461
 462     URLs for the DDBJ, EMBL, and GenBank Feature Table Document:
 463     http://www.ddbj.nig.ac.jp/FT/full_index.html
 464     http://www.ebi.ac.uk/embl/Documentation/FT_definitions/feature_table.html
 465     http://www.ncbi.nlm.nih.gov/projects/collab/FT/index.html
 466
 467     URLs for DDBJ, EMBL, and GenBank Release Notes :
 468     ftp://ftp.ddbj.nig.ac.jp/database/ddbj/ddbjrel.txt
 469     http://www.ebi.ac.uk/embl/Documentation/Release_notes/current/relnotes.html
 470     ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt
 471
 472     Because INSDSeq is a compromise, a number of pragmatic decisions have
 473     been made:
 474
 475   In pursuit of simplicity and familiarity a number of fields do not
 476     have full substructure defined here where there is already a
 477     standard flatfile format string. For example:
 478
 479    Dates:      DD-MON-YYYY (eg 10-JUN-2003)
 480
 481    Author:     LastName, Initials  (eg Smith, J.N.)
 482             or Lastname Initials   (eg Smith J.N.)
 483
 484    Journal:    JournalName Volume (issue), page-range (year)
 485             or JournalName Volume(issue):page-range(year)
 486             eg Appl. Environ. Microbiol. 61 (4), 1646-1648 (1995)
 487                Appl. Environ. Microbiol. 61(4):1646-1648(1995).
 488
 489   FeatureLocations are representated as in the flatfile feature table,
 490     but FeatureIntervals may also be provided as a convenience
 491
 492   FeatureQualifiers are represented as in the flatfile feature table.
 493
 494   Primary has a string that represents a table to construct
 495     a third party (TPA) sequence.
 496
 497   other-seqids can have strings with the "vertical bar format" sequence
 498     identifiers used in BLAST for example, when they are non-INSD types.
 499
 500   Currently in flatfile format you only see Accession numbers, but there
 501     are others, like patents, submitter clone names, etc which will
 502     appear here
 503
 504   There are also a number of elements that could have been more exactly
 505     specified, but in the interest of simplicity have been simply left as
 506     optional. For example:
 507
 508   All publicly accessible sequence records in INSDSeq format will
 509     include accession and accession.version. However, these elements are
 510     optional in optional in INSDSeq so that this format can also be used
 511     for non-public sequence data, prior to the assignment of accessions and
 512     version numbers. In such cases, records will have only "other-seqids".
 513
 514   sequences will normally all have "sequence" filled in. But contig records
 515     will have a "join" statement in the "contig" slot, and no "sequence".
 516     We also may consider a retrieval option with no sequence of any kind
 517     and no feature table to quickly check minimal values.
 518
 519   Four (optional) elements are specific to records represented via the EMBL
 520     sequence database: INSDSeq_update-release, INSDSeq_create-release,
 521     INSDSeq_entry-version, and INSDSeq_database-reference.
 522
 523   One (optional) element is specific to records originating at the GenBank
 524     and DDBJ sequence databases: INSDSeq_segment.
 525
 526 ********
 527 -->
 528 <xs:element name="INSDSet">
 529   <xs:complexType>
 530     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 531       <xs:element ref="tns:INSDSeq"/>
 532     </xs:sequence>
 533   </xs:complexType>
 534 </xs:element>
 535
 536 <xs:element name="INSDSeq">
 537   <xs:complexType>
 538     <xs:sequence>
 539       <xs:element name="INSDSeq_locus" type="xs:string"/>
 540       <xs:element name="INSDSeq_length" type="xs:integer"/>
 541       <xs:element name="INSDSeq_strandedness" type="xs:string" minOccurs="0"/>
 542       <xs:element name="INSDSeq_moltype" type="xs:string"/>
 543       <xs:element name="INSDSeq_topology" type="xs:string" minOccurs="0"/>
 544       <xs:element name="INSDSeq_division" type="xs:string"/>
 545       <xs:element name="INSDSeq_update-date" type="xs:string"/>
 546       <xs:element name="INSDSeq_create-date" type="xs:string" minOccurs="0"/>
 547       <xs:element name="INSDSeq_update-release" type="xs:string" minOccurs="0"/>
 548       <xs:element name="INSDSeq_create-release" type="xs:string" minOccurs="0"/>
 549       <xs:element name="INSDSeq_definition" type="xs:string"/>
 550       <xs:element name="INSDSeq_primary-accession" type="xs:string" minOccurs="0"/>
 551       <xs:element name="INSDSeq_entry-version" type="xs:string" minOccurs="0"/>
 552       <xs:element name="INSDSeq_accession-version" type="xs:string" minOccurs="0"/>
 553       <xs:element name="INSDSeq_other-seqids" minOccurs="0">
 554         <xs:complexType>
 555           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 556             <xs:element ref="tns:INSDSeqid"/>
 557           </xs:sequence>
 558         </xs:complexType>
 559       </xs:element>
 560       <xs:element name="INSDSeq_secondary-accessions" minOccurs="0">
 561         <xs:complexType>
 562           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 563             <xs:element ref="tns:INSDSecondary-accn"/>
 564           </xs:sequence>
 565         </xs:complexType>
 566       </xs:element>
 567       <xs:element name="INSDSeq_project" type="xs:string" minOccurs="0"/>
 568       <xs:element name="INSDSeq_keywords" minOccurs="0">
 569         <xs:complexType>
 570           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 571             <xs:element ref="tns:INSDKeyword"/>
 572           </xs:sequence>
 573         </xs:complexType>
 574       </xs:element>
 575       <xs:element name="INSDSeq_segment" type="xs:string" minOccurs="0"/>
 576       <xs:element name="INSDSeq_source" type="xs:string" minOccurs="0"/>
 577       <xs:element name="INSDSeq_organism" type="xs:string" minOccurs="0"/>
 578       <xs:element name="INSDSeq_taxonomy" type="xs:string" minOccurs="0"/>
 579       <xs:element name="INSDSeq_references" minOccurs="0">
 580         <xs:complexType>
 581           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 582             <xs:element ref="tns:INSDReference"/>
 583           </xs:sequence>
 584         </xs:complexType>
 585       </xs:element>
 586       <xs:element name="INSDSeq_comment" type="xs:string" minOccurs="0"/>
 587       <xs:element name="INSDSeq_tagset" minOccurs="0">
 588         <xs:complexType>
 589           <xs:sequence>
 590             <xs:element ref="tns:INSDTagset"/>
 591           </xs:sequence>
 592         </xs:complexType>
 593       </xs:element>
 594       <xs:element name="INSDSeq_primary" type="xs:string" minOccurs="0"/>
 595       <xs:element name="INSDSeq_source-db" type="xs:string" minOccurs="0"/>
 596       <xs:element name="INSDSeq_database-reference" type="xs:string" minOccurs="0"/>
 597       <xs:element name="INSDSeq_feature-table" minOccurs="0">
 598         <xs:complexType>
 599           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 600             <xs:element ref="tns:INSDFeature"/>
 601           </xs:sequence>
 602         </xs:complexType>
 603       </xs:element>
 604 <!-- Optional for other dump forms -->
 605       <xs:element name="INSDSeq_sequence" type="xs:string" minOccurs="0"/>
 606       <xs:element name="INSDSeq_contig" type="xs:string" minOccurs="0"/>
 607     </xs:sequence>
 608   </xs:complexType>
 609 </xs:element>
 610
 611 <xs:element name="INSDSeqid" type="xs:string"/>
 612
 613 <xs:element name="INSDSecondary-accn" type="xs:string"/>
 614
 615 <xs:element name="INSDKeyword" type="xs:string"/>
 616
 617 <!--
 618  INSDReference_position contains a string value indicating the
 619  basepair span(s) to which a reference applies. The allowable
 620  formats are:
 621
 622    X..Y  : Where X and Y are integers separated by two periods,
 623            X >= 1 , Y <= sequence length, and X <= Y
 624
 625            Multiple basepair spans can exist, separated by a
 626            semi-colon and a space. For example : 10..20; 100..500
 627
 628    sites : The string literal 'sites', indicating that a reference
 629            provides sequence annotation information, but the specific
 630            basepair spans are either not captured, or were too numerous
 631            to record.
 632
 633            The 'sites' literal string is singly occuring, and
 634             cannot be used in conjunction with any X..Y basepair spans.
 635
 636    References that lack an INSDReference_position element apply
 637    to the entire sequence.
 638 -->
 639 <xs:element name="INSDAuthor" type="xs:string"/>
 640
 641 <xs:element name="INSDReference">
 642   <xs:complexType>
 643     <xs:sequence>
 644       <xs:element name="INSDReference_reference" type="xs:string"/>
 645       <xs:element name="INSDReference_position" type="xs:string" minOccurs="0"/>
 646       <xs:element name="INSDReference_authors" minOccurs="0">
 647         <xs:complexType>
 648           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 649             <xs:element ref="tns:INSDAuthor"/>
 650           </xs:sequence>
 651         </xs:complexType>
 652       </xs:element>
 653       <xs:element name="INSDReference_consortium" type="xs:string" minOccurs="0"/>
 654       <xs:element name="INSDReference_title" type="xs:string" minOccurs="0"/>
 655       <xs:element name="INSDReference_journal" type="xs:string"/>
 656       <xs:element name="INSDReference_xref" minOccurs="0">
 657         <xs:complexType>
 658           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 659             <xs:element ref="tns:INSDXref"/>
 660           </xs:sequence>
 661         </xs:complexType>
 662       </xs:element>
 663       <xs:element name="INSDReference_pubmed" type="xs:integer" minOccurs="0"/>
 664       <xs:element name="INSDReference_remark" type="xs:string" minOccurs="0"/>
 665     </xs:sequence>
 666   </xs:complexType>
 667 </xs:element>
 668
 669 <!--
 670  INSDXref provides a method for referring to records in
 671  other databases. INSDXref_dbname is a string value that
 672  provides the name of the database, and INSDXref_dbname
 673  is a string value that provides the record's identifier
 674  in that database.
 675 -->
 676 <xs:element name="INSDXref">
 677   <xs:complexType>
 678     <xs:sequence>
 679       <xs:element name="INSDXref_dbname" type="xs:string"/>
 680       <xs:element name="INSDXref_id" type="xs:string"/>
 681     </xs:sequence>
 682   </xs:complexType>
 683 </xs:element>
 684
 685 <!--
 686  INSDTagset is used for community-specific data elements
 687  in a tag/value format.
 688 -->
 689 <xs:element name="INSDTagset">
 690   <xs:complexType>
 691     <xs:sequence>
 692       <xs:element name="INSDTagset_authority" type="xs:string" minOccurs="0"/>
 693       <xs:element name="INSDTagset_version" type="xs:string" minOccurs="0"/>
 694       <xs:element name="INSDTagset_url" type="xs:string" minOccurs="0"/>
 695       <xs:element name="INSDTagset_tags" minOccurs="0">
 696         <xs:complexType>
 697           <xs:sequence>
 698             <xs:element ref="tns:INSDTags"/>
 699           </xs:sequence>
 700         </xs:complexType>
 701       </xs:element>
 702     </xs:sequence>
 703   </xs:complexType>
 704 </xs:element>
 705
 706 <xs:element name="INSDTags">
 707   <xs:complexType>
 708     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 709       <xs:element ref="tns:INSDTag"/>
 710     </xs:sequence>
 711   </xs:complexType>
 712 </xs:element>
 713
 714 <xs:element name="INSDTag">
 715   <xs:complexType>
 716     <xs:sequence>
 717       <xs:element name="INSDTag_name" type="xs:string" minOccurs="0"/>
 718       <xs:element name="INSDTag_value" type="xs:string" minOccurs="0"/>
 719       <xs:element name="INSDTag_unit" type="xs:string" minOccurs="0"/>
 720     </xs:sequence>
 721   </xs:complexType>
 722 </xs:element>
 723
 724 <!--
 725  INSDFeature_operator contains a string value describing
 726  the relationship among a set of INSDInterval within
 727  INSDFeature_intervals. The allowable formats are:
 728
 729    join :  The string literal 'join' indicates that the
 730            INSDInterval intervals are biologically joined
 731            together into a contiguous molecule.
 732
 733    order : The string literal 'order' indicates that the
 734            INSDInterval intervals are in the presented
 735            order, but they are not necessarily contiguous.
 736
 737    Either 'join' or 'order' is required if INSDFeature_intervals
 738    is comprised of more than one INSDInterval .
 739 -->
 740 <xs:element name="INSDFeature">
 741   <xs:complexType>
 742     <xs:sequence>
 743       <xs:element name="INSDFeature_key" type="xs:string"/>
 744       <xs:element name="INSDFeature_location" type="xs:string"/>
 745       <xs:element name="INSDFeature_intervals" minOccurs="0">
 746         <xs:complexType>
 747           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 748             <xs:element ref="tns:INSDInterval"/>
 749           </xs:sequence>
 750         </xs:complexType>
 751       </xs:element>
 752       <xs:element name="INSDFeature_operator" type="xs:string" minOccurs="0"/>
 753       <xs:element name="INSDFeature_partial5" minOccurs="0">
 754         <xs:complexType>
 755           <xs:attribute name="value" use="required">
 756             <xs:simpleType>
 757               <xs:restriction base="xs:string">
 758                 <xs:enumeration value="true"/>
 759                 <xs:enumeration value="false"/>
 760               </xs:restriction>
 761             </xs:simpleType>
 762           </xs:attribute>
 763         </xs:complexType>
 764       </xs:element>
 765       <xs:element name="INSDFeature_partial3" minOccurs="0">
 766         <xs:complexType>
 767           <xs:attribute name="value" use="required">
 768             <xs:simpleType>
 769               <xs:restriction base="xs:string">
 770                 <xs:enumeration value="true"/>
 771                 <xs:enumeration value="false"/>
 772               </xs:restriction>
 773             </xs:simpleType>
 774           </xs:attribute>
 775         </xs:complexType>
 776       </xs:element>
 777       <xs:element name="INSDFeature_quals" minOccurs="0">
 778         <xs:complexType>
 779           <xs:sequence minOccurs="0" maxOccurs="unbounded">
 780             <xs:element ref="tns:INSDQualifier"/>
 781           </xs:sequence>
 782         </xs:complexType>
 783       </xs:element>
 784     </xs:sequence>
 785   </xs:complexType>
 786 </xs:element>
 787
 788 <!--
 789  INSDInterval_iscomp is a boolean indicating whether
 790  an INSDInterval_from / INSDInterval_to location
 791  represents a location on the complement strand.
 792  When INSDInterval_iscomp is TRUE, it essentially
 793  confirms that a 'from' value which is greater than
 794  a 'to' value is intentional, because the location
 795  is on the opposite strand of the presented sequence.
 796  INSDInterval_interbp is a boolean indicating whether
 797  a feature (such as a restriction site) is located
 798  between two adjacent basepairs. When INSDInterval_iscomp
 799  is TRUE, the 'from' and 'to' values must differ by
 800  exactly one base.
 801 -->
 802 <xs:element name="INSDInterval">
 803   <xs:complexType>
 804     <xs:sequence>
 805       <xs:element name="INSDInterval_from" type="xs:integer" minOccurs="0"/>
 806       <xs:element name="INSDInterval_to" type="xs:integer" minOccurs="0"/>
 807       <xs:element name="INSDInterval_point" type="xs:integer" minOccurs="0"/>
 808       <xs:element name="INSDInterval_iscomp" minOccurs="0">
 809         <xs:complexType>
 810           <xs:attribute name="value" use="required">
 811             <xs:simpleType>
 812               <xs:restriction base="xs:string">
 813                 <xs:enumeration value="true"/>
 814                 <xs:enumeration value="false"/>
 815               </xs:restriction>
 816             </xs:simpleType>
 817           </xs:attribute>
 818         </xs:complexType>
 819       </xs:element>
 820       <xs:element name="INSDInterval_interbp" minOccurs="0">
 821         <xs:complexType>
 822           <xs:attribute name="value" use="required">
 823             <xs:simpleType>
 824               <xs:restriction base="xs:string">
 825                 <xs:enumeration value="true"/>
 826                 <xs:enumeration value="false"/>
 827               </xs:restriction>
 828             </xs:simpleType>
 829           </xs:attribute>
 830         </xs:complexType>
 831       </xs:element>
 832       <xs:element name="INSDInterval_accession" type="xs:string"/>
 833     </xs:sequence>
 834   </xs:complexType>
 835 </xs:element>
 836
 837 <xs:element name="INSDQualifier">
 838   <xs:complexType>
 839     <xs:sequence>
 840       <xs:element name="INSDQualifier_name" type="xs:string"/>
 841       <xs:element name="INSDQualifier_value" type="xs:string" minOccurs="0"/>
 842     </xs:sequence>
 843   </xs:complexType>
 844 </xs:element>
 845
 846 <!--
 847  INSDTagsetRules defines mandatory, optional, and unique tags
 848  for a given community's INSDTagset. If the tagset is extensible,
 849  then additional tags which are not included in the list of
 850  mandatory or optional tags may be present. The uniquetags
 851  element provides a list of the tags that may occur only once
 852  in a given tagset.
 853 -->
 854 <xs:element name="INSDTagsetRules">
 855   <xs:complexType>
 856     <xs:sequence>
 857       <xs:element name="INSDTagsetRules_authority" type="xs:string" minOccurs="0"/>
 858       <xs:element name="INSDTagsetRules_version" type="xs:string" minOccurs="0"/>
 859       <xs:element name="INSDTagsetRules_mandatorytags" minOccurs="0">
 860         <xs:complexType>
 861           <xs:sequence>
 862             <xs:element ref="tns:INSDTagNames"/>
 863           </xs:sequence>
 864         </xs:complexType>
 865       </xs:element>
 866       <xs:element name="INSDTagsetRules_optionaltags" minOccurs="0">
 867         <xs:complexType>
 868           <xs:sequence>
 869             <xs:element ref="tns:INSDTagNames"/>
 870           </xs:sequence>
 871         </xs:complexType>
 872       </xs:element>
 873       <xs:element name="INSDTagsetRules_uniquetags" minOccurs="0">
 874         <xs:complexType>
 875           <xs:sequence>
 876             <xs:element ref="tns:INSDTagNames"/>
 877           </xs:sequence>
 878         </xs:complexType>
 879       </xs:element>
 880       <xs:element name="INSDTagsetRules_extensible" minOccurs="0">
 881         <xs:complexType>
 882           <xs:attribute name="value" use="required">
 883             <xs:simpleType>
 884               <xs:restriction base="xs:string">
 885                 <xs:enumeration value="true"/>
 886                 <xs:enumeration value="false"/>
 887               </xs:restriction>
 888             </xs:simpleType>
 889           </xs:attribute>
 890         </xs:complexType>
 891       </xs:element>
 892     </xs:sequence>
 893   </xs:complexType>
 894 </xs:element>
 895
 896 <xs:element name="INSDTagNames">
 897   <xs:complexType>
 898     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 899       <xs:element name="INSDTagNames_E" type="xs:string"/>
 900     </xs:sequence>
 901   </xs:complexType>
 902 </xs:element>
 903
 904 <xs:element name="INSDTagsetRuleSet">
 905   <xs:complexType>
 906     <xs:sequence minOccurs="0" maxOccurs="unbounded">
 907       <xs:element ref="tns:INSDTagsetRules"/>
 908     </xs:sequence>
 909   </xs:complexType>
 910 </xs:element>
 911
 912
 913 <xs:include schemaLocation="efetch_seq.xsd" />
 914
 915   <xs:complexType name="IdListType">
 916     <xs:sequence>
 917       <xs:element minOccurs="0" maxOccurs="unbounded" name="Id" type="xs:string" />
 918     </xs:sequence>
 919   </xs:complexType>
 920
 921 <!-- Request/Response -->
 922
 923   <xs:element name="eFetchRequest">
 924     <xs:complexType>
 925       <xs:sequence>
 926         <xs:element minOccurs="0" maxOccurs="1" name="db" type="xs:string" />
 927         <xs:element minOccurs="0" maxOccurs="1" name="id" type="xs:string" />
 928         <xs:element minOccurs="0" maxOccurs="1" name="WebEnv" type="xs:string" />
 929         <xs:element minOccurs="0" maxOccurs="1" name="query_key" type="xs:string" />
 930         <xs:element minOccurs="0" maxOccurs="1" name="tool" type="xs:string" />
 931         <xs:element minOccurs="0" maxOccurs="1" name="email" type="xs:string" />
 932         <xs:element minOccurs="0" maxOccurs="1" name="retstart" type="xs:string" />
 933         <xs:element minOccurs="0" maxOccurs="1" name="retmax" type="xs:string" />
 934         <xs:element minOccurs="0" maxOccurs="1" name="rettype" type="xs:string" />
 935         <xs:element minOccurs="0" maxOccurs="1" name="strand" type="xs:string" />
 936         <xs:element minOccurs="0" maxOccurs="1" name="seq_start" type="xs:string" />
 937         <xs:element minOccurs="0" maxOccurs="1" name="seq_stop" type="xs:string" />
 938         <xs:element minOccurs="0" maxOccurs="1" name="complexity" type="xs:string" />
 939         <xs:element minOccurs="0" maxOccurs="1" name="report" type="xs:string" />
 940       </xs:sequence>
 941     </xs:complexType>
 942   </xs:element>
 943
 944
 945   <xs:element name="eFetchResult">
 946     <xs:complexType>
 947       <xs:sequence>
 948         <xs:element minOccurs="0" maxOccurs="1" name="ERROR" type="xs:string" />
 949         <xs:element minOccurs="0" maxOccurs="1" ref="tns:TSeqSet"/>
 950         <xs:element minOccurs="0" maxOccurs="1" ref="tns:GBSet" />
 951         <xs:element minOccurs="0" maxOccurs="1" ref="tns:INSDSet" />
 952         <!-- xs:element minOccurs="0" maxOccurs="1" name="Bioseq-set" type="tns:Bioseq-setType" / -->
 953         <xs:element minOccurs="0" maxOccurs="1" name="IdList" type="tns:IdListType" />
 954       </xs:sequence>
 955     </xs:complexType>
 956   </xs:element>
 957
 958 </xs:schema>
 959     </types>
 960
 961
 962     <message name="eFetchRequest_m">
 963         <part name="inpp" element="nsef:eFetchRequest"/>
 964     </message>
 965     <message name="eFetchResponse_m">
 966         <part name="outp" element="nsef:eFetchResult"/>
 967     </message>
 968
 969     <portType name="eUtilsServiceSoap">
 970         <operation name="run_eFetch">
 971             <input message="s0:eFetchRequest_m"/>
 972             <output message="s0:eFetchResponse_m"/>
 973         </operation>
 974     </portType>
 975
 976     <binding name="eUtilsServiceSoap" type="s0:eUtilsServiceSoap">
 977         <soap:binding style="document" transport="http://schemas.xmlsoap.org/soap/http"/>
 978         <operation name="run_eFetch">
 979             <soap:operation soapAction="efetch" style="document"/>
 980             <input>
 981                 <soap:body use="literal"  />
 982             </input>
 983             <output>
 984                 <soap:body use="literal" />
 985             </output>
 986         </operation>
 987     </binding>
 988
 989     <service name="eFetchSequenceService">
 990         <port name="eUtilsServiceSoap" binding="s0:eUtilsServiceSoap">
 991             <soap:address location="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/soap/v2.0/soap_adapter_2_0.cgi"/>
 992         </port>
 993     </service>
 994
 995 </wsdl:definitions>