From 24ee07fab7a58d1de7733ae9d636bb35422569d7 Mon Sep 17 00:00:00 2001 From: Gavin Date: Tue, 23 Apr 2024 11:57:42 -0700 Subject: [PATCH] Add jitpack Java client --- .gitattributes | 9 + .gitignore | 9 +- Makefile | 8 +- RELEASE_NOTES.md | 4 +- build.gradle | 64 +++ gradle/libs.versions.toml | 2 + gradle/wrapper/gradle-wrapper.jar | Bin 0 -> 43453 bytes gradle/wrapper/gradle-wrapper.properties | 7 + gradlew | 249 +++++++++ kbase.yml | 2 +- lib/SampleService/SampleServiceImpl.py | 6 +- settings.gradle | 8 + .../sampleservice/CreateDataLinkParams.java | 203 +++++++ .../sampleservice/CreateDataLinkResults.java | 114 ++++ .../sampleservice/CreateSampleParams.java | 174 ++++++ .../java/us/kbase/sampleservice/DataLink.java | 234 ++++++++ .../sampleservice/ExpireDataLinkParams.java | 124 +++++ .../sampleservice/GetDataLinkParams.java | 63 +++ .../GetDataLinksFromDataParams.java | 103 ++++ .../GetDataLinksFromDataResults.java | 84 +++ .../GetDataLinksFromSampleParams.java | 122 ++++ .../GetDataLinksFromSampleResults.java | 85 +++ .../GetDataLinksFromSampleSetParams.java | 105 ++++ .../GetMetadataKeyStaticMetadataParams.java | 87 +++ .../GetMetadataKeyStaticMetadataResults.java | 64 +++ .../sampleservice/GetSampleACLsParams.java | 83 +++ .../kbase/sampleservice/GetSampleParams.java | 102 ++++ .../sampleservice/GetSampleViaDataParams.java | 101 ++++ .../kbase/sampleservice/GetSamplesParams.java | 79 +++ .../PropagateDataLinkParams.java | 204 +++++++ .../PropagateDataLinkResults.java | 64 +++ .../ReplaceSampleACLsParams.java | 141 +++++ .../java/us/kbase/sampleservice/Sample.java | 161 ++++++ .../us/kbase/sampleservice/SampleACLs.java | 141 +++++ .../us/kbase/sampleservice/SampleAddress.java | 82 +++ .../kbase/sampleservice/SampleIdentifier.java | 78 +++ .../us/kbase/sampleservice/SampleNode.java | 167 ++++++ .../sampleservice/SampleServiceClient.java | 527 ++++++++++++++++++ .../kbase/sampleservice/SourceMetadata.java | 104 ++++ .../sampleservice/UpdateSampleACLsParams.java | 207 +++++++ .../UpdateSamplesACLsParams.java | 191 +++++++ .../sampleservice/ValidateSamplesError.java | 150 +++++ .../sampleservice/ValidateSamplesParams.java | 63 +++ .../sampleservice/ValidateSamplesResults.java | 61 ++ 44 files changed, 4629 insertions(+), 7 deletions(-) create mode 100644 .gitattributes create mode 100644 build.gradle create mode 100644 gradle/libs.versions.toml create mode 100644 gradle/wrapper/gradle-wrapper.jar create mode 100644 gradle/wrapper/gradle-wrapper.properties create mode 100755 gradlew create mode 100644 settings.gradle create mode 100644 src/main/java/us/kbase/sampleservice/CreateDataLinkParams.java create mode 100644 src/main/java/us/kbase/sampleservice/CreateDataLinkResults.java create mode 100644 src/main/java/us/kbase/sampleservice/CreateSampleParams.java create mode 100644 src/main/java/us/kbase/sampleservice/DataLink.java create mode 100644 src/main/java/us/kbase/sampleservice/ExpireDataLinkParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetDataLinkParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetDataLinksFromDataParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetDataLinksFromDataResults.java create mode 100644 src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleResults.java create mode 100644 src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleSetParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataResults.java create mode 100644 src/main/java/us/kbase/sampleservice/GetSampleACLsParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetSampleParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetSampleViaDataParams.java create mode 100644 src/main/java/us/kbase/sampleservice/GetSamplesParams.java create mode 100644 src/main/java/us/kbase/sampleservice/PropagateDataLinkParams.java create mode 100644 src/main/java/us/kbase/sampleservice/PropagateDataLinkResults.java create mode 100644 src/main/java/us/kbase/sampleservice/ReplaceSampleACLsParams.java create mode 100644 src/main/java/us/kbase/sampleservice/Sample.java create mode 100644 src/main/java/us/kbase/sampleservice/SampleACLs.java create mode 100644 src/main/java/us/kbase/sampleservice/SampleAddress.java create mode 100644 src/main/java/us/kbase/sampleservice/SampleIdentifier.java create mode 100644 src/main/java/us/kbase/sampleservice/SampleNode.java create mode 100644 src/main/java/us/kbase/sampleservice/SampleServiceClient.java create mode 100644 src/main/java/us/kbase/sampleservice/SourceMetadata.java create mode 100644 src/main/java/us/kbase/sampleservice/UpdateSampleACLsParams.java create mode 100644 src/main/java/us/kbase/sampleservice/UpdateSamplesACLsParams.java create mode 100644 src/main/java/us/kbase/sampleservice/ValidateSamplesError.java create mode 100644 src/main/java/us/kbase/sampleservice/ValidateSamplesParams.java create mode 100644 src/main/java/us/kbase/sampleservice/ValidateSamplesResults.java diff --git a/.gitattributes b/.gitattributes new file mode 100644 index 00000000..097f9f98 --- /dev/null +++ b/.gitattributes @@ -0,0 +1,9 @@ +# +# https://help.github.com/articles/dealing-with-line-endings/ +# +# Linux start script should use lf +/gradlew text eol=lf + +# These are Windows script files and should use crlf +*.bat text eol=crlf + diff --git a/.gitignore b/.gitignore index 9a983292..737666c3 100644 --- a/.gitignore +++ b/.gitignore @@ -26,6 +26,13 @@ mongo.log # IDE .vscode .idea +.project # OS -.DS_Store \ No newline at end of file +.DS_Store + +# Ignore Gradle project-specific cache directory +.gradle + +# Ignore Gradle build output directory +build diff --git a/Makefile b/Makefile index 85816b5c..41e0b6de 100644 --- a/Makefile +++ b/Makefile @@ -36,7 +36,13 @@ compile: kb-sdk compile $(SPEC_FILE) \ --out . \ - --html \ + --html + + kb-sdk compile $(SPEC_FILE) \ + --out . \ + --java \ + --url https://ci.kbase.us/services/sampleservice \ + --javasrc src/main/java test: test-sdkless coverage-reports diff --git a/RELEASE_NOTES.md b/RELEASE_NOTES.md index 5b518731..13694796 100644 --- a/RELEASE_NOTES.md +++ b/RELEASE_NOTES.md @@ -1,6 +1,8 @@ # SampleService release notes -## Unreleased +## 0.2.6 + +* Added jitpack build for Java client ## 0.2.5 diff --git a/build.gradle b/build.gradle new file mode 100644 index 00000000..22ab2962 --- /dev/null +++ b/build.gradle @@ -0,0 +1,64 @@ +/* + * This file was generated by the Gradle 'init' task. + */ + +plugins { + id 'java' + id 'maven-publish' +} + +group = 'com.github.kbase' + +var VER_AUTH2_CLIENT = "0.5.0" +var VER_JAVA_COMMON = "0.3.0" + +repositories { + mavenCentral() + maven { + name = "JitPack" + url = 'https://jitpack.io' + } +} + +compileJava { + // TODO BUILD remove when we no longer support java 8, use `options.release = 11 if necessary` + java.sourceCompatibility = JavaVersion.VERSION_1_8 + java.targetCompatibility = JavaVersion.VERSION_1_8 +} + +java { + withSourcesJar() + withJavadocJar() +} + +javadoc { + /* TODO DOCS the current sdk documenation looks like invalid html to javadoc + * need to go through and remove + */ + failOnError = false + options { + // I don't know why this isn't working, but it's not worth spending time on right now + links "https://docs.oracle.com/javase/8/docs/api/" + links "https://javadoc.jitpack.io/com/github/kbase/auth2_client_java/$VER_AUTH2_CLIENT/javadoc/" + links "https://javadoc.jitpack.io/com/github/kbase/java_common/$VER_JAVA_COMMON/javadoc/" + } +} + +publishing { + publications { + maven(MavenPublication) { + from components.java + } + } +} + +dependencies { + + // using older dependencies to not force upgrades on services that might not be able to + // handle them. Need to upgrade the services and then upgrade here + implementation "com.github.kbase:java_common:$VER_JAVA_COMMON" + implementation "com.fasterxml.jackson.core:jackson-databind:2.5.4" + implementation "com.github.kbase:auth2_client_java:$VER_AUTH2_CLIENT" + implementation 'javax.annotation:javax.annotation-api:1.3.2' + +} diff --git a/gradle/libs.versions.toml b/gradle/libs.versions.toml new file mode 100644 index 00000000..4ac3234a --- /dev/null +++ b/gradle/libs.versions.toml @@ -0,0 +1,2 @@ +# This file was generated by the Gradle 'init' task. +# https://docs.gradle.org/current/userguide/platforms.html#sub::toml-dependencies-format diff --git a/gradle/wrapper/gradle-wrapper.jar b/gradle/wrapper/gradle-wrapper.jar new file mode 100644 index 0000000000000000000000000000000000000000..e6441136f3d4ba8a0da8d277868979cfbc8ad796 GIT binary patch literal 43453 zcma&N1CXTcmMvW9vTb(Rwr$&4wr$(C?dmSu>@vG-+vuvg^_??!{yS%8zW-#zn-LkA z5&1^$^{lnmUON?}LBF8_K|(?T0Ra(xUH{($5eN!MR#ZihR#HxkUPe+_R8Cn`RRs(P z_^*#_XlXmGv7!4;*Y%p4nw?{bNp@UZHv1?Um8r6)Fei3p@ClJn0ECfg1hkeuUU@Or zDaPa;U3fE=3L}DooL;8f;P0ipPt0Z~9P0)lbStMS)ag54=uL9ia-Lm3nh|@(Y?B`; zx_#arJIpXH!U{fbCbI^17}6Ri*H<>OLR%c|^mh8+)*h~K8Z!9)DPf zR2h?lbDZQ`p9P;&DQ4F0sur@TMa!Y}S8irn(%d-gi0*WxxCSk*A?3lGh=gcYN?FGl z7D=Js!i~0=u3rox^eO3i@$0=n{K1lPNU zwmfjRVmLOCRfe=seV&P*1Iq=^i`502keY8Uy-WNPwVNNtJFx?IwAyRPZo2Wo1+S(xF37LJZ~%i)kpFQ3Fw=mXfd@>%+)RpYQLnr}B~~zoof(JVm^^&f zxKV^+3D3$A1G;qh4gPVjhrC8e(VYUHv#dy^)(RoUFM?o%W-EHxufuWf(l*@-l+7vt z=l`qmR56K~F|v<^Pd*p~1_y^P0P^aPC##d8+HqX4IR1gu+7w#~TBFphJxF)T$2WEa zxa?H&6=Qe7d(#tha?_1uQys2KtHQ{)Qco)qwGjrdNL7thd^G5i8Os)CHqc>iOidS} z%nFEDdm=GXBw=yXe1W-ShHHFb?Cc70+$W~z_+}nAoHFYI1MV1wZegw*0y^tC*s%3h zhD3tN8b=Gv&rj}!SUM6|ajSPp*58KR7MPpI{oAJCtY~JECm)*m_x>AZEu>DFgUcby z1Qaw8lU4jZpQ_$;*7RME+gq1KySGG#Wql>aL~k9tLrSO()LWn*q&YxHEuzmwd1?aAtI zBJ>P=&$=l1efe1CDU;`Fd+_;&wI07?V0aAIgc(!{a z0Jg6Y=inXc3^n!U0Atk`iCFIQooHqcWhO(qrieUOW8X(x?(RD}iYDLMjSwffH2~tB z)oDgNBLB^AJBM1M^c5HdRx6fBfka`(LD-qrlh5jqH~);#nw|iyp)()xVYak3;Ybik z0j`(+69aK*B>)e_p%=wu8XC&9e{AO4c~O1U`5X9}?0mrd*m$_EUek{R?DNSh(=br# z#Q61gBzEpmy`$pA*6!87 zSDD+=@fTY7<4A?GLqpA?Pb2z$pbCc4B4zL{BeZ?F-8`s$?>*lXXtn*NC61>|*w7J* z$?!iB{6R-0=KFmyp1nnEmLsA-H0a6l+1uaH^g%c(p{iT&YFrbQ$&PRb8Up#X3@Zsk zD^^&LK~111%cqlP%!_gFNa^dTYT?rhkGl}5=fL{a`UViaXWI$k-UcHJwmaH1s=S$4 z%4)PdWJX;hh5UoK?6aWoyLxX&NhNRqKam7tcOkLh{%j3K^4Mgx1@i|Pi&}<^5>hs5 zm8?uOS>%)NzT(%PjVPGa?X%`N2TQCKbeH2l;cTnHiHppPSJ<7y-yEIiC!P*ikl&!B z%+?>VttCOQM@ShFguHVjxX^?mHX^hSaO_;pnyh^v9EumqSZTi+#f&_Vaija0Q-e*| z7ulQj6Fs*bbmsWp{`auM04gGwsYYdNNZcg|ph0OgD>7O}Asn7^Z=eI>`$2*v78;sj-}oMoEj&@)9+ycEOo92xSyY344^ z11Hb8^kdOvbf^GNAK++bYioknrpdN>+u8R?JxG=!2Kd9r=YWCOJYXYuM0cOq^FhEd zBg2puKy__7VT3-r*dG4c62Wgxi52EMCQ`bKgf*#*ou(D4-ZN$+mg&7$u!! 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-x "$JAVACMD" ] ; then + die "ERROR: JAVA_HOME is set to an invalid directory: $JAVA_HOME + +Please set the JAVA_HOME variable in your environment to match the +location of your Java installation." + fi +else + JAVACMD=java + if ! command -v java >/dev/null 2>&1 + then + die "ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH. + +Please set the JAVA_HOME variable in your environment to match the +location of your Java installation." + fi +fi + +# Increase the maximum file descriptors if we can. +if ! "$cygwin" && ! "$darwin" && ! "$nonstop" ; then + case $MAX_FD in #( + max*) + # In POSIX sh, ulimit -H is undefined. That's why the result is checked to see if it worked. + # shellcheck disable=SC2039,SC3045 + MAX_FD=$( ulimit -H -n ) || + warn "Could not query maximum file descriptor limit" + esac + case $MAX_FD in #( + '' | soft) :;; #( + *) + # In POSIX sh, ulimit -n is undefined. That's why the result is checked to see if it worked. + # shellcheck disable=SC2039,SC3045 + ulimit -n "$MAX_FD" || + warn "Could not set maximum file descriptor limit to $MAX_FD" + esac +fi + +# Collect all arguments for the java command, stacking in reverse order: +# * args from the command line +# * the main class name +# * -classpath +# * -D...appname settings +# * --module-path (only if needed) +# * DEFAULT_JVM_OPTS, JAVA_OPTS, and GRADLE_OPTS environment variables. + +# For Cygwin or MSYS, switch paths to Windows format before running java +if "$cygwin" || "$msys" ; then + APP_HOME=$( cygpath --path --mixed "$APP_HOME" ) + CLASSPATH=$( cygpath --path --mixed "$CLASSPATH" ) + + JAVACMD=$( cygpath --unix "$JAVACMD" ) + + # Now convert the arguments - kludge to limit ourselves to /bin/sh + for arg do + if + case $arg in #( + -*) false ;; # don't mess with options #( + /?*) t=${arg#/} t=/${t%%/*} # looks like a POSIX filepath + [ -e "$t" ] ;; #( + *) false ;; + esac + then + arg=$( cygpath --path --ignore --mixed "$arg" ) + fi + # Roll the args list around exactly as many times as the number of + # args, so each arg winds up back in the position where it started, but + # possibly modified. + # + # NB: a `for` loop captures its iteration list before it begins, so + # changing the positional parameters here affects neither the number of + # iterations, nor the values presented in `arg`. + shift # remove old arg + set -- "$@" "$arg" # push replacement arg + done +fi + + +# Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script. +DEFAULT_JVM_OPTS='"-Xmx64m" "-Xms64m"' + +# Collect all arguments for the java command: +# * DEFAULT_JVM_OPTS, JAVA_OPTS, JAVA_OPTS, and optsEnvironmentVar are not allowed to contain shell fragments, +# and any embedded shellness will be escaped. +# * For example: A user cannot expect ${Hostname} to be expanded, as it is an environment variable and will be +# treated as '${Hostname}' itself on the command line. + +set -- \ + "-Dorg.gradle.appname=$APP_BASE_NAME" \ + -classpath "$CLASSPATH" \ + org.gradle.wrapper.GradleWrapperMain \ + "$@" + +# Stop when "xargs" is not available. +if ! command -v xargs >/dev/null 2>&1 +then + die "xargs is not available" +fi + +# Use "xargs" to parse quoted args. +# +# With -n1 it outputs one arg per line, with the quotes and backslashes removed. +# +# In Bash we could simply go: +# +# readarray ARGS < <( xargs -n1 <<<"$var" ) && +# set -- "${ARGS[@]}" "$@" +# +# but POSIX shell has neither arrays nor command substitution, so instead we +# post-process each arg (as a line of input to sed) to backslash-escape any +# character that might be a shell metacharacter, then use eval to reverse +# that process (while maintaining the separation between arguments), and wrap +# the whole thing up as a single "set" statement. +# +# This will of course break if any of these variables contains a newline or +# an unmatched quote. +# + +eval "set -- $( + printf '%s\n' "$DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS" | + xargs -n1 | + sed ' s~[^-[:alnum:]+,./:=@_]~\\&~g; ' | + tr '\n' ' ' + )" '"$@"' + +exec "$JAVACMD" "$@" diff --git a/kbase.yml b/kbase.yml index f8546f9f..8b3ffd94 100644 --- a/kbase.yml +++ b/kbase.yml @@ -8,7 +8,7 @@ service-language: python module-version: - 0.2.5 + 0.2.6 owners: [gaprice, slebras] diff --git a/lib/SampleService/SampleServiceImpl.py b/lib/SampleService/SampleServiceImpl.py index c27c9c54..497176f6 100644 --- a/lib/SampleService/SampleServiceImpl.py +++ b/lib/SampleService/SampleServiceImpl.py @@ -57,9 +57,9 @@ class SampleService: # state. A method could easily clobber the state set by another while # the latter method is running. ######################################### noqa - VERSION = "0.2.5" - GIT_URL = "git@github.com:kbase/sample_service.git" - GIT_COMMIT_HASH = "b7e68b5768795d77287d8ea6d67d32b21ae34cf9" + VERSION = "0.2.6" + GIT_URL = "https://github.com/kbase/sample_service.git" + GIT_COMMIT_HASH = "0fb836e801f78a42aab2b3be7c00013946fb1038" #BEGIN_CLASS_HEADER #END_CLASS_HEADER diff --git a/settings.gradle b/settings.gradle new file mode 100644 index 00000000..40aec444 --- /dev/null +++ b/settings.gradle @@ -0,0 +1,8 @@ +/* + * This file was generated by the Gradle 'init' task. + * + * The settings file is used to specify which projects to include in your build. + * For more detailed information on multi-project builds, please refer to https://docs.gradle.org/8.7/userguide/multi_project_builds.html in the Gradle documentation. + */ + +rootProject.name = 'sample_service' diff --git a/src/main/java/us/kbase/sampleservice/CreateDataLinkParams.java b/src/main/java/us/kbase/sampleservice/CreateDataLinkParams.java new file mode 100644 index 00000000..b228e6c3 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/CreateDataLinkParams.java @@ -0,0 +1,203 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: CreateDataLinkParams

+ * 
+ * create_data_link parameters.
+ *         upa - the workspace UPA of the object to be linked.
+ *         dataid - the dataid of the data to be linked, if any, within the object. If omitted the
+ *             entire object is linked to the sample.
+ *         id - the sample id.
+ *         version - the sample version.
+ *         node - the sample node.
+ *         update - if false (the default), fail if a link already exists from the data unit (the
+ *             combination of the UPA and dataid). if true, expire the old link and create the new
+ *             link unless the link is already to the requested sample node, in which case the
+ *             operation is a no-op.
+ *         as_admin - run the method as a service administrator. The user must have full
+ *             administration permissions.
+ *         as_user - create the link as a different user. Ignored if as_admin is not true. Neither
+ *             the administrator nor the impersonated user need have permissions to the data or
+ *             sample.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "upa", + "dataid", + "id", + "version", + "node", + "update", + "as_admin", + "as_user" +}) +public class CreateDataLinkParams { + + @JsonProperty("upa") + private String upa; + @JsonProperty("dataid") + private String dataid; + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + @JsonProperty("node") + private String node; + @JsonProperty("update") + private Long update; + @JsonProperty("as_admin") + private Long asAdmin; + @JsonProperty("as_user") + private String asUser; + private Map additionalProperties = new HashMap(); + + @JsonProperty("upa") + public String getUpa() { + return upa; + } + + @JsonProperty("upa") + public void setUpa(String upa) { + this.upa = upa; + } + + public CreateDataLinkParams withUpa(String upa) { + this.upa = upa; + return this; + } + + @JsonProperty("dataid") + public String getDataid() { + return dataid; + } + + @JsonProperty("dataid") + public void setDataid(String dataid) { + this.dataid = dataid; + } + + public CreateDataLinkParams withDataid(String dataid) { + this.dataid = dataid; + return this; + } + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public CreateDataLinkParams withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public CreateDataLinkParams withVersion(Long version) { + this.version = version; + return this; + } + + @JsonProperty("node") + public String getNode() { + return node; + } + + @JsonProperty("node") + public void setNode(String node) { + this.node = node; + } + + public CreateDataLinkParams withNode(String node) { + this.node = node; + return this; + } + + @JsonProperty("update") + public Long getUpdate() { + return update; + } + + @JsonProperty("update") + public void setUpdate(Long update) { + this.update = update; + } + + public CreateDataLinkParams withUpdate(Long update) { + this.update = update; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public CreateDataLinkParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonProperty("as_user") + public String getAsUser() { + return asUser; + } + + @JsonProperty("as_user") + public void setAsUser(String asUser) { + this.asUser = asUser; + } + + public CreateDataLinkParams withAsUser(String asUser) { + this.asUser = asUser; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((((((((((("CreateDataLinkParams"+" [upa=")+ upa)+", dataid=")+ dataid)+", id=")+ id)+", version=")+ version)+", node=")+ node)+", update=")+ update)+", asAdmin=")+ asAdmin)+", asUser=")+ asUser)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/CreateDataLinkResults.java b/src/main/java/us/kbase/sampleservice/CreateDataLinkResults.java new file mode 100644 index 00000000..2ef5e0c1 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/CreateDataLinkResults.java @@ -0,0 +1,114 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: CreateDataLinkResults

+ * 
+ * create_data_link results.
+ *         new_link - the new link.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "new_link" +}) +public class CreateDataLinkResults { + + /** + *

Original spec-file type: DataLink

+ * 
+     * A data link from a KBase workspace object to a sample.
+     *         upa - the workspace UPA of the linked object.
+     *         dataid - the dataid of the linked data, if any, within the object. If omitted the
+     *             entire object is linked to the sample.
+     *         id - the sample id.
+     *         version - the sample version.
+     *         node - the sample node.
+     *         createdby - the user that created the link.
+     *         created - the time the link was created.
+     *         expiredby - the user that expired the link, if any.
+     *         expired - the time the link was expired, if at all.
+     *
+ * + */ + @JsonProperty("new_link") + private DataLink newLink; + private Map additionalProperties = new HashMap(); + + /** + *

Original spec-file type: DataLink

+ * 
+     * A data link from a KBase workspace object to a sample.
+     *         upa - the workspace UPA of the linked object.
+     *         dataid - the dataid of the linked data, if any, within the object. If omitted the
+     *             entire object is linked to the sample.
+     *         id - the sample id.
+     *         version - the sample version.
+     *         node - the sample node.
+     *         createdby - the user that created the link.
+     *         created - the time the link was created.
+     *         expiredby - the user that expired the link, if any.
+     *         expired - the time the link was expired, if at all.
+     *
+ * + */ + @JsonProperty("new_link") + public DataLink getNewLink() { + return newLink; + } + + /** + *

Original spec-file type: DataLink

+ * 
+     * A data link from a KBase workspace object to a sample.
+     *         upa - the workspace UPA of the linked object.
+     *         dataid - the dataid of the linked data, if any, within the object. If omitted the
+     *             entire object is linked to the sample.
+     *         id - the sample id.
+     *         version - the sample version.
+     *         node - the sample node.
+     *         createdby - the user that created the link.
+     *         created - the time the link was created.
+     *         expiredby - the user that expired the link, if any.
+     *         expired - the time the link was expired, if at all.
+     *
+ * + */ + @JsonProperty("new_link") + public void setNewLink(DataLink newLink) { + this.newLink = newLink; + } + + public CreateDataLinkResults withNewLink(DataLink newLink) { + this.newLink = newLink; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((("CreateDataLinkResults"+" [newLink=")+ newLink)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/CreateSampleParams.java b/src/main/java/us/kbase/sampleservice/CreateSampleParams.java new file mode 100644 index 00000000..7036e337 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/CreateSampleParams.java @@ -0,0 +1,174 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: CreateSampleParams

+ * 
+ * Parameters for creating a sample.
+ * If Sample.id is null, a new Sample is created along with a new ID.
+ * Otherwise, a new version of Sample.id is created. If Sample.id does not exist, an error
+ *   is returned.
+ * Any incoming user, version or timestamp in the incoming sample is ignored.
+ * sample - the sample to save.
+ * prior_version - if non-null, ensures that no other sample version is saved between
+ *     prior_version and the version that is created by this save. If this is not the case,
+ *     the sample will fail to save.
+ * as_admin - run the method as a service administrator. The user must have full
+ *     administration permissions.
+ * as_user - create the sample as a different user. Ignored if as_admin is not true. Neither
+ *     the administrator nor the impersonated user need have permissions to the sample if a
+ *     new version is saved.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "sample", + "prior_version", + "as_admin", + "as_user" +}) +public class CreateSampleParams { + + /** + *

Original spec-file type: Sample

+ * 
+     * A Sample, consisting of a tree of subsamples and replicates.
+     * id - the ID of the sample.
+     * user - the user that saved the sample.
+     * node_tree - the tree(s) of sample nodes in the sample. The the roots of all trees must
+     *     be BioReplicate nodes. All the BioReplicate nodes must be at the start of the list,
+     *     and all child nodes must occur after their parents in the list.
+     * name - the name of the sample. Must be less than 255 characters.
+     * save_date - the date the sample version was saved.
+     * version - the version of the sample.
+     *
+ * + */ + @JsonProperty("sample") + private Sample sample; + @JsonProperty("prior_version") + private Long priorVersion; + @JsonProperty("as_admin") + private Long asAdmin; + @JsonProperty("as_user") + private String asUser; + private Map additionalProperties = new HashMap(); + + /** + *

Original spec-file type: Sample

+ * 
+     * A Sample, consisting of a tree of subsamples and replicates.
+     * id - the ID of the sample.
+     * user - the user that saved the sample.
+     * node_tree - the tree(s) of sample nodes in the sample. The the roots of all trees must
+     *     be BioReplicate nodes. All the BioReplicate nodes must be at the start of the list,
+     *     and all child nodes must occur after their parents in the list.
+     * name - the name of the sample. Must be less than 255 characters.
+     * save_date - the date the sample version was saved.
+     * version - the version of the sample.
+     *
+ * + */ + @JsonProperty("sample") + public Sample getSample() { + return sample; + } + + /** + *

Original spec-file type: Sample

+ * 
+     * A Sample, consisting of a tree of subsamples and replicates.
+     * id - the ID of the sample.
+     * user - the user that saved the sample.
+     * node_tree - the tree(s) of sample nodes in the sample. The the roots of all trees must
+     *     be BioReplicate nodes. All the BioReplicate nodes must be at the start of the list,
+     *     and all child nodes must occur after their parents in the list.
+     * name - the name of the sample. Must be less than 255 characters.
+     * save_date - the date the sample version was saved.
+     * version - the version of the sample.
+     *
+ * + */ + @JsonProperty("sample") + public void setSample(Sample sample) { + this.sample = sample; + } + + public CreateSampleParams withSample(Sample sample) { + this.sample = sample; + return this; + } + + @JsonProperty("prior_version") + public Long getPriorVersion() { + return priorVersion; + } + + @JsonProperty("prior_version") + public void setPriorVersion(Long priorVersion) { + this.priorVersion = priorVersion; + } + + public CreateSampleParams withPriorVersion(Long priorVersion) { + this.priorVersion = priorVersion; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public CreateSampleParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonProperty("as_user") + public String getAsUser() { + return asUser; + } + + @JsonProperty("as_user") + public void setAsUser(String asUser) { + this.asUser = asUser; + } + + public CreateSampleParams withAsUser(String asUser) { + this.asUser = asUser; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((("CreateSampleParams"+" [sample=")+ sample)+", priorVersion=")+ priorVersion)+", asAdmin=")+ asAdmin)+", asUser=")+ asUser)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/DataLink.java b/src/main/java/us/kbase/sampleservice/DataLink.java new file mode 100644 index 00000000..2d0b1354 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/DataLink.java @@ -0,0 +1,234 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: DataLink

+ * 
+ * A data link from a KBase workspace object to a sample.
+ *         upa - the workspace UPA of the linked object.
+ *         dataid - the dataid of the linked data, if any, within the object. If omitted the
+ *             entire object is linked to the sample.
+ *         id - the sample id.
+ *         version - the sample version.
+ *         node - the sample node.
+ *         createdby - the user that created the link.
+ *         created - the time the link was created.
+ *         expiredby - the user that expired the link, if any.
+ *         expired - the time the link was expired, if at all.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "linkid", + "upa", + "dataid", + "id", + "version", + "node", + "createdby", + "created", + "expiredby", + "expired" +}) +public class DataLink { + + @JsonProperty("linkid") + private String linkid; + @JsonProperty("upa") + private String upa; + @JsonProperty("dataid") + private String dataid; + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + @JsonProperty("node") + private String node; + @JsonProperty("createdby") + private String createdby; + @JsonProperty("created") + private Long created; + @JsonProperty("expiredby") + private String expiredby; + @JsonProperty("expired") + private Long expired; + private Map additionalProperties = new HashMap(); + + @JsonProperty("linkid") + public String getLinkid() { + return linkid; + } + + @JsonProperty("linkid") + public void setLinkid(String linkid) { + this.linkid = linkid; + } + + public DataLink withLinkid(String linkid) { + this.linkid = linkid; + return this; + } + + @JsonProperty("upa") + public String getUpa() { + return upa; + } + + @JsonProperty("upa") + public void setUpa(String upa) { + this.upa = upa; + } + + public DataLink withUpa(String upa) { + this.upa = upa; + return this; + } + + @JsonProperty("dataid") + public String getDataid() { + return dataid; + } + + @JsonProperty("dataid") + public void setDataid(String dataid) { + this.dataid = dataid; + } + + public DataLink withDataid(String dataid) { + this.dataid = dataid; + return this; + } + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public DataLink withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public DataLink withVersion(Long version) { + this.version = version; + return this; + } + + @JsonProperty("node") + public String getNode() { + return node; + } + + @JsonProperty("node") + public void setNode(String node) { + this.node = node; + } + + public DataLink withNode(String node) { + this.node = node; + return this; + } + + @JsonProperty("createdby") + public String getCreatedby() { + return createdby; + } + + @JsonProperty("createdby") + public void setCreatedby(String createdby) { + this.createdby = createdby; + } + + public DataLink withCreatedby(String createdby) { + this.createdby = createdby; + return this; + } + + @JsonProperty("created") + public Long getCreated() { + return created; + } + + @JsonProperty("created") + public void setCreated(Long created) { + this.created = created; + } + + public DataLink withCreated(Long created) { + this.created = created; + return this; + } + + @JsonProperty("expiredby") + public String getExpiredby() { + return expiredby; + } + + @JsonProperty("expiredby") + public void setExpiredby(String expiredby) { + this.expiredby = expiredby; + } + + public DataLink withExpiredby(String expiredby) { + this.expiredby = expiredby; + return this; + } + + @JsonProperty("expired") + public Long getExpired() { + return expired; + } + + @JsonProperty("expired") + public void setExpired(Long expired) { + this.expired = expired; + } + + public DataLink withExpired(Long expired) { + this.expired = expired; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((((((((((((((("DataLink"+" [linkid=")+ linkid)+", upa=")+ upa)+", dataid=")+ dataid)+", id=")+ id)+", version=")+ version)+", node=")+ node)+", createdby=")+ createdby)+", created=")+ created)+", expiredby=")+ expiredby)+", expired=")+ expired)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/ExpireDataLinkParams.java b/src/main/java/us/kbase/sampleservice/ExpireDataLinkParams.java new file mode 100644 index 00000000..17f526fe --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/ExpireDataLinkParams.java @@ -0,0 +1,124 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: ExpireDataLinkParams

+ * 
+ * expire_data_link parameters.
+ *         upa - the workspace upa of the object from which the link originates.
+ *         dataid - the dataid, if any, of the data within the object from which the link originates.
+ *             Omit for links where the link is from the entire object.
+ *         as_admin - run the method as a service administrator. The user must have full
+ *             administration permissions.
+ *         as_user - expire the link as a different user. Ignored if as_admin is not true. Neither
+ *             the administrator nor the impersonated user need have permissions to the link if a
+ *             new version is saved.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "upa", + "dataid", + "as_admin", + "as_user" +}) +public class ExpireDataLinkParams { + + @JsonProperty("upa") + private String upa; + @JsonProperty("dataid") + private String dataid; + @JsonProperty("as_admin") + private Long asAdmin; + @JsonProperty("as_user") + private String asUser; + private Map additionalProperties = new HashMap(); + + @JsonProperty("upa") + public String getUpa() { + return upa; + } + + @JsonProperty("upa") + public void setUpa(String upa) { + this.upa = upa; + } + + public ExpireDataLinkParams withUpa(String upa) { + this.upa = upa; + return this; + } + + @JsonProperty("dataid") + public String getDataid() { + return dataid; + } + + @JsonProperty("dataid") + public void setDataid(String dataid) { + this.dataid = dataid; + } + + public ExpireDataLinkParams withDataid(String dataid) { + this.dataid = dataid; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public ExpireDataLinkParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonProperty("as_user") + public String getAsUser() { + return asUser; + } + + @JsonProperty("as_user") + public void setAsUser(String asUser) { + this.asUser = asUser; + } + + public ExpireDataLinkParams withAsUser(String asUser) { + this.asUser = asUser; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((("ExpireDataLinkParams"+" [upa=")+ upa)+", dataid=")+ dataid)+", asAdmin=")+ asAdmin)+", asUser=")+ asUser)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetDataLinkParams.java b/src/main/java/us/kbase/sampleservice/GetDataLinkParams.java new file mode 100644 index 00000000..b0ca7b30 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetDataLinkParams.java @@ -0,0 +1,63 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetDataLinkParams

+ * 
+ * get_data_link parameters.
+ *         linkid - the link ID.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "linkid" +}) +public class GetDataLinkParams { + + @JsonProperty("linkid") + private String linkid; + private Map additionalProperties = new HashMap(); + + @JsonProperty("linkid") + public String getLinkid() { + return linkid; + } + + @JsonProperty("linkid") + public void setLinkid(String linkid) { + this.linkid = linkid; + } + + public GetDataLinkParams withLinkid(String linkid) { + this.linkid = linkid; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((("GetDataLinkParams"+" [linkid=")+ linkid)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetDataLinksFromDataParams.java b/src/main/java/us/kbase/sampleservice/GetDataLinksFromDataParams.java new file mode 100644 index 00000000..e97d6d11 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetDataLinksFromDataParams.java @@ -0,0 +1,103 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetDataLinksFromDataParams

+ * 
+ * get_data_links_from_data parameters.
+ *         upa - the data UPA.
+ *         effective_time - the effective time at which the query should be run - the default is
+ *             the current time. Providing a time allows for reproducibility of previous results.
+ *         as_admin - run the method as a service administrator. The user must have read
+ *             administration permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "upa", + "effective_time", + "as_admin" +}) +public class GetDataLinksFromDataParams { + + @JsonProperty("upa") + private String upa; + @JsonProperty("effective_time") + private Long effectiveTime; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("upa") + public String getUpa() { + return upa; + } + + @JsonProperty("upa") + public void setUpa(String upa) { + this.upa = upa; + } + + public GetDataLinksFromDataParams withUpa(String upa) { + this.upa = upa; + return this; + } + + @JsonProperty("effective_time") + public Long getEffectiveTime() { + return effectiveTime; + } + + @JsonProperty("effective_time") + public void setEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + } + + public GetDataLinksFromDataParams withEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public GetDataLinksFromDataParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((("GetDataLinksFromDataParams"+" [upa=")+ upa)+", effectiveTime=")+ effectiveTime)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetDataLinksFromDataResults.java b/src/main/java/us/kbase/sampleservice/GetDataLinksFromDataResults.java new file mode 100644 index 00000000..f9bf3f4f --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetDataLinksFromDataResults.java @@ -0,0 +1,84 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetDataLinksFromDataResults

+ * 
+ * get_data_links_from_data results.
+ *         links - the links.
+ *         effective_time - the time at which the query was run. This timestamp, if saved, can be
+ *             used when running the method again to ensure reproducible results.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "links", + "effective_time" +}) +public class GetDataLinksFromDataResults { + + @JsonProperty("links") + private List links; + @JsonProperty("effective_time") + private Long effectiveTime; + private Map additionalProperties = new HashMap(); + + @JsonProperty("links") + public List getLinks() { + return links; + } + + @JsonProperty("links") + public void setLinks(List links) { + this.links = links; + } + + public GetDataLinksFromDataResults withLinks(List links) { + this.links = links; + return this; + } + + @JsonProperty("effective_time") + public Long getEffectiveTime() { + return effectiveTime; + } + + @JsonProperty("effective_time") + public void setEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + } + + public GetDataLinksFromDataResults withEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((("GetDataLinksFromDataResults"+" [links=")+ links)+", effectiveTime=")+ effectiveTime)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleParams.java b/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleParams.java new file mode 100644 index 00000000..f89a1e03 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleParams.java @@ -0,0 +1,122 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetDataLinksFromSampleParams

+ * 
+ * get_data_links_from_sample parameters.
+ *         id - the sample ID.
+ *         version - the sample version.
+ *         effective_time - the effective time at which the query should be run - the default is
+ *             the current time. Providing a time allows for reproducibility of previous results.
+ *         as_admin - run the method as a service administrator. The user must have read
+ *             administration permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "version", + "effective_time", + "as_admin" +}) +public class GetDataLinksFromSampleParams { + + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + @JsonProperty("effective_time") + private Long effectiveTime; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public GetDataLinksFromSampleParams withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public GetDataLinksFromSampleParams withVersion(Long version) { + this.version = version; + return this; + } + + @JsonProperty("effective_time") + public Long getEffectiveTime() { + return effectiveTime; + } + + @JsonProperty("effective_time") + public void setEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + } + + public GetDataLinksFromSampleParams withEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public GetDataLinksFromSampleParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((("GetDataLinksFromSampleParams"+" [id=")+ id)+", version=")+ version)+", effectiveTime=")+ effectiveTime)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleResults.java b/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleResults.java new file mode 100644 index 00000000..aea9f155 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleResults.java @@ -0,0 +1,85 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetDataLinksFromSampleResults

+ * 
+ * get_data_links_from_sample results.
+ *         links - the links.
+ *         effective_time - the time at which the query was run. This timestamp, if saved, can be
+ *             used when running the method again to ensure reproducible results. Note that changes
+ *             to workspace permissions may cause results to change over time.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "links", + "effective_time" +}) +public class GetDataLinksFromSampleResults { + + @JsonProperty("links") + private List links; + @JsonProperty("effective_time") + private Long effectiveTime; + private Map additionalProperties = new HashMap(); + + @JsonProperty("links") + public List getLinks() { + return links; + } + + @JsonProperty("links") + public void setLinks(List links) { + this.links = links; + } + + public GetDataLinksFromSampleResults withLinks(List links) { + this.links = links; + return this; + } + + @JsonProperty("effective_time") + public Long getEffectiveTime() { + return effectiveTime; + } + + @JsonProperty("effective_time") + public void setEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + } + + public GetDataLinksFromSampleResults withEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((("GetDataLinksFromSampleResults"+" [links=")+ links)+", effectiveTime=")+ effectiveTime)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleSetParams.java b/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleSetParams.java new file mode 100644 index 00000000..94ab6cf0 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetDataLinksFromSampleSetParams.java @@ -0,0 +1,105 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetDataLinksFromSampleSetParams

+ * 
+ * get_data_links_from_sample_set parameters.
+ * sample_ids - a list of sample ids and versions
+ * effective_time - the time at which the query was run. This timestamp, if saved, can be
+ *     used when running the method again to enqure reproducible results. Note that changes
+ *     to workspace permissions may cause results to change over time.
+ * as_admin - run the method as a service administrator. The user must have read
+ *     administration permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "sample_ids", + "effective_time", + "as_admin" +}) +public class GetDataLinksFromSampleSetParams { + + @JsonProperty("sample_ids") + private List sampleIds; + @JsonProperty("effective_time") + private Long effectiveTime; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("sample_ids") + public List getSampleIds() { + return sampleIds; + } + + @JsonProperty("sample_ids") + public void setSampleIds(List sampleIds) { + this.sampleIds = sampleIds; + } + + public GetDataLinksFromSampleSetParams withSampleIds(List sampleIds) { + this.sampleIds = sampleIds; + return this; + } + + @JsonProperty("effective_time") + public Long getEffectiveTime() { + return effectiveTime; + } + + @JsonProperty("effective_time") + public void setEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + } + + public GetDataLinksFromSampleSetParams withEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public GetDataLinksFromSampleSetParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((("GetDataLinksFromSampleSetParams"+" [sampleIds=")+ sampleIds)+", effectiveTime=")+ effectiveTime)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataParams.java b/src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataParams.java new file mode 100644 index 00000000..316c8342 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataParams.java @@ -0,0 +1,87 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetMetadataKeyStaticMetadataParams

+ * 
+ * get_metadata_key_static_metadata parameters.
+ *         keys - the list of metadata keys to interrogate.
+ *         prefix -
+ *             0 (the default) to interrogate standard metadata keys.
+ *             1 to interrogate prefix metadata keys, but require an exact match to the prefix key.
+ *             2 to interrogate prefix metadata keys, but any keys which are a prefix of the
+ *                 provided keys will be included in the results.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "keys", + "prefix" +}) +public class GetMetadataKeyStaticMetadataParams { + + @JsonProperty("keys") + private List keys; + @JsonProperty("prefix") + private Long prefix; + private Map additionalProperties = new HashMap(); + + @JsonProperty("keys") + public List getKeys() { + return keys; + } + + @JsonProperty("keys") + public void setKeys(List keys) { + this.keys = keys; + } + + public GetMetadataKeyStaticMetadataParams withKeys(List keys) { + this.keys = keys; + return this; + } + + @JsonProperty("prefix") + public Long getPrefix() { + return prefix; + } + + @JsonProperty("prefix") + public void setPrefix(Long prefix) { + this.prefix = prefix; + } + + public GetMetadataKeyStaticMetadataParams withPrefix(Long prefix) { + this.prefix = prefix; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((("GetMetadataKeyStaticMetadataParams"+" [keys=")+ keys)+", prefix=")+ prefix)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataResults.java b/src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataResults.java new file mode 100644 index 00000000..0d031437 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetMetadataKeyStaticMetadataResults.java @@ -0,0 +1,64 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; +import us.kbase.common.service.UObject; + + +/** + *

Original spec-file type: GetMetadataKeyStaticMetadataResults

+ * 
+ * get_metadata_key_static_metadata results.
+ *         static_metadata - the static metadata for the requested keys.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "static_metadata" +}) +public class GetMetadataKeyStaticMetadataResults { + + @JsonProperty("static_metadata") + private Map> staticMetadata; + private Map additionalProperties = new HashMap(); + + @JsonProperty("static_metadata") + public Map> getStaticMetadata() { + return staticMetadata; + } + + @JsonProperty("static_metadata") + public void setStaticMetadata(Map> staticMetadata) { + this.staticMetadata = staticMetadata; + } + + public GetMetadataKeyStaticMetadataResults withStaticMetadata(Map> staticMetadata) { + this.staticMetadata = staticMetadata; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((("GetMetadataKeyStaticMetadataResults"+" [staticMetadata=")+ staticMetadata)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetSampleACLsParams.java b/src/main/java/us/kbase/sampleservice/GetSampleACLsParams.java new file mode 100644 index 00000000..ab89106d --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetSampleACLsParams.java @@ -0,0 +1,83 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetSampleACLsParams

+ * 
+ * get_sample_acls parameters.
+ * id - the ID of the sample to retrieve.
+ * as_admin - get the sample acls regardless of ACL contents as long as the user has
+ *     administration read permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "as_admin" +}) +public class GetSampleACLsParams { + + @JsonProperty("id") + private String id; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public GetSampleACLsParams withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public GetSampleACLsParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((("GetSampleACLsParams"+" [id=")+ id)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetSampleParams.java b/src/main/java/us/kbase/sampleservice/GetSampleParams.java new file mode 100644 index 00000000..43ba49e8 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetSampleParams.java @@ -0,0 +1,102 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetSampleParams

+ * 
+ * get_sample parameters.
+ * id - the ID of the sample to retrieve.
+ * version - the version of the sample to retrieve, or the most recent sample if omitted.
+ * as_admin - get the sample regardless of ACLs as long as the user has administration read
+ *     permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "version", + "as_admin" +}) +public class GetSampleParams { + + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public GetSampleParams withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public GetSampleParams withVersion(Long version) { + this.version = version; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public GetSampleParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((("GetSampleParams"+" [id=")+ id)+", version=")+ version)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetSampleViaDataParams.java b/src/main/java/us/kbase/sampleservice/GetSampleViaDataParams.java new file mode 100644 index 00000000..dabbfb58 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetSampleViaDataParams.java @@ -0,0 +1,101 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetSampleViaDataParams

+ * 
+ * get_sample_via_data parameters.
+ *         upa - the workspace UPA of the target object.
+ *         id - the target sample id.
+ *         version - the target sample version.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "upa", + "id", + "version" +}) +public class GetSampleViaDataParams { + + @JsonProperty("upa") + private String upa; + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + private Map additionalProperties = new HashMap(); + + @JsonProperty("upa") + public String getUpa() { + return upa; + } + + @JsonProperty("upa") + public void setUpa(String upa) { + this.upa = upa; + } + + public GetSampleViaDataParams withUpa(String upa) { + this.upa = upa; + return this; + } + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public GetSampleViaDataParams withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public GetSampleViaDataParams withVersion(Long version) { + this.version = version; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((("GetSampleViaDataParams"+" [upa=")+ upa)+", id=")+ id)+", version=")+ version)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/GetSamplesParams.java b/src/main/java/us/kbase/sampleservice/GetSamplesParams.java new file mode 100644 index 00000000..a3cd6deb --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/GetSamplesParams.java @@ -0,0 +1,79 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: GetSamplesParams

+ * + * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "samples", + "as_admin" +}) +public class GetSamplesParams { + + @JsonProperty("samples") + private List samples; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("samples") + public List getSamples() { + return samples; + } + + @JsonProperty("samples") + public void setSamples(List samples) { + this.samples = samples; + } + + public GetSamplesParams withSamples(List samples) { + this.samples = samples; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public GetSamplesParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((("GetSamplesParams"+" [samples=")+ samples)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/PropagateDataLinkParams.java b/src/main/java/us/kbase/sampleservice/PropagateDataLinkParams.java new file mode 100644 index 00000000..570bcdb8 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/PropagateDataLinkParams.java @@ -0,0 +1,204 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: PropagateDataLinkParams

+ * 
+ * propagate_data_links parameters.
+ *         id - the sample id.
+ *         version - the sample version. (data links are propagated to)
+ *         previous_version - the previouse sample version. (data links are propagated from)
+ *         ignore_types - the workspace data type ignored from propagating. default empty.
+ *         update - if false (the default), fail if a link already exists from the data unit (the
+ *             combination of the UPA and dataid). if true, expire the old link and create the new
+ *             link unless the link is already to the requested sample node, in which case the
+ *             operation is a no-op.
+ *         effective_time - the effective time at which the query should be run - the default is
+ *             the current time. Providing a time allows for reproducibility of previous results.
+ *         as_admin - run the method as a service administrator. The user must have full
+ *             administration permissions.
+ *         as_user - create the link as a different user. Ignored if as_admin is not true. Neither
+ *             the administrator nor the impersonated user need have permissions to the data or
+ *             sample.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "version", + "previous_version", + "ignore_types", + "update", + "effective_time", + "as_admin", + "as_user" +}) +public class PropagateDataLinkParams { + + @JsonProperty("id") + private java.lang.String id; + @JsonProperty("version") + private Long version; + @JsonProperty("previous_version") + private Long previousVersion; + @JsonProperty("ignore_types") + private List ignoreTypes; + @JsonProperty("update") + private Long update; + @JsonProperty("effective_time") + private Long effectiveTime; + @JsonProperty("as_admin") + private Long asAdmin; + @JsonProperty("as_user") + private java.lang.String asUser; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public java.lang.String getId() { + return id; + } + + @JsonProperty("id") + public void setId(java.lang.String id) { + this.id = id; + } + + public PropagateDataLinkParams withId(java.lang.String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public PropagateDataLinkParams withVersion(Long version) { + this.version = version; + return this; + } + + @JsonProperty("previous_version") + public Long getPreviousVersion() { + return previousVersion; + } + + @JsonProperty("previous_version") + public void setPreviousVersion(Long previousVersion) { + this.previousVersion = previousVersion; + } + + public PropagateDataLinkParams withPreviousVersion(Long previousVersion) { + this.previousVersion = previousVersion; + return this; + } + + @JsonProperty("ignore_types") + public List getIgnoreTypes() { + return ignoreTypes; + } + + @JsonProperty("ignore_types") + public void setIgnoreTypes(List ignoreTypes) { + this.ignoreTypes = ignoreTypes; + } + + public PropagateDataLinkParams withIgnoreTypes(List ignoreTypes) { + this.ignoreTypes = ignoreTypes; + return this; + } + + @JsonProperty("update") + public Long getUpdate() { + return update; + } + + @JsonProperty("update") + public void setUpdate(Long update) { + this.update = update; + } + + public PropagateDataLinkParams withUpdate(Long update) { + this.update = update; + return this; + } + + @JsonProperty("effective_time") + public Long getEffectiveTime() { + return effectiveTime; + } + + @JsonProperty("effective_time") + public void setEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + } + + public PropagateDataLinkParams withEffectiveTime(Long effectiveTime) { + this.effectiveTime = effectiveTime; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public PropagateDataLinkParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonProperty("as_user") + public java.lang.String getAsUser() { + return asUser; + } + + @JsonProperty("as_user") + public void setAsUser(java.lang.String asUser) { + this.asUser = asUser; + } + + public PropagateDataLinkParams withAsUser(java.lang.String asUser) { + this.asUser = asUser; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((((((((((((((("PropagateDataLinkParams"+" [id=")+ id)+", version=")+ version)+", previousVersion=")+ previousVersion)+", ignoreTypes=")+ ignoreTypes)+", update=")+ update)+", effectiveTime=")+ effectiveTime)+", asAdmin=")+ asAdmin)+", asUser=")+ asUser)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/PropagateDataLinkResults.java b/src/main/java/us/kbase/sampleservice/PropagateDataLinkResults.java new file mode 100644 index 00000000..49bdc917 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/PropagateDataLinkResults.java @@ -0,0 +1,64 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: PropagateDataLinkResults

+ * 
+ * propagate_data_links results.
+ *         links - the links.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "links" +}) +public class PropagateDataLinkResults { + + @JsonProperty("links") + private List links; + private Map additionalProperties = new HashMap(); + + @JsonProperty("links") + public List getLinks() { + return links; + } + + @JsonProperty("links") + public void setLinks(List links) { + this.links = links; + } + + public PropagateDataLinkResults withLinks(List links) { + this.links = links; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((("PropagateDataLinkResults"+" [links=")+ links)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/ReplaceSampleACLsParams.java b/src/main/java/us/kbase/sampleservice/ReplaceSampleACLsParams.java new file mode 100644 index 00000000..6f7eb2cd --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/ReplaceSampleACLsParams.java @@ -0,0 +1,141 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: ReplaceSampleACLsParams

+ * 
+ * replace_sample_acls parameters.
+ *         id - the ID of the sample to modify.
+ *         acls - the ACLs to set on the sample.
+ *         as_admin - replace the sample acls regardless of sample ACL contents as long as the user
+ *             has full service administration permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "acls", + "as_admin" +}) +public class ReplaceSampleACLsParams { + + @JsonProperty("id") + private String id; + /** + *

Original spec-file type: SampleACLs

+ * 
+     * Access control lists for a sample. Access levels include the privileges of the lower
+     * access levels.
+     * owner - the user that created and owns the sample.
+     * admin - users that can administrate (e.g. alter ACLs) the sample.
+     * write - users that can write (e.g. create a new version) to the sample.
+     * read - users that can view the sample.
+     * public_read - whether any user can read the sample, regardless of permissions.
+     *
+ * + */ + @JsonProperty("acls") + private SampleACLs acls; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public ReplaceSampleACLsParams withId(String id) { + this.id = id; + return this; + } + + /** + *

Original spec-file type: SampleACLs

+ * 
+     * Access control lists for a sample. Access levels include the privileges of the lower
+     * access levels.
+     * owner - the user that created and owns the sample.
+     * admin - users that can administrate (e.g. alter ACLs) the sample.
+     * write - users that can write (e.g. create a new version) to the sample.
+     * read - users that can view the sample.
+     * public_read - whether any user can read the sample, regardless of permissions.
+     *
+ * + */ + @JsonProperty("acls") + public SampleACLs getAcls() { + return acls; + } + + /** + *

Original spec-file type: SampleACLs

+ * 
+     * Access control lists for a sample. Access levels include the privileges of the lower
+     * access levels.
+     * owner - the user that created and owns the sample.
+     * admin - users that can administrate (e.g. alter ACLs) the sample.
+     * write - users that can write (e.g. create a new version) to the sample.
+     * read - users that can view the sample.
+     * public_read - whether any user can read the sample, regardless of permissions.
+     *
+ * + */ + @JsonProperty("acls") + public void setAcls(SampleACLs acls) { + this.acls = acls; + } + + public ReplaceSampleACLsParams withAcls(SampleACLs acls) { + this.acls = acls; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public ReplaceSampleACLsParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((("ReplaceSampleACLsParams"+" [id=")+ id)+", acls=")+ acls)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/Sample.java b/src/main/java/us/kbase/sampleservice/Sample.java new file mode 100644 index 00000000..79ac3685 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/Sample.java @@ -0,0 +1,161 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: Sample

+ * 
+ * A Sample, consisting of a tree of subsamples and replicates.
+ * id - the ID of the sample.
+ * user - the user that saved the sample.
+ * node_tree - the tree(s) of sample nodes in the sample. The the roots of all trees must
+ *     be BioReplicate nodes. All the BioReplicate nodes must be at the start of the list,
+ *     and all child nodes must occur after their parents in the list.
+ * name - the name of the sample. Must be less than 255 characters.
+ * save_date - the date the sample version was saved.
+ * version - the version of the sample.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "user", + "node_tree", + "name", + "save_date", + "version" +}) +public class Sample { + + @JsonProperty("id") + private String id; + @JsonProperty("user") + private String user; + @JsonProperty("node_tree") + private List nodeTree; + @JsonProperty("name") + private String name; + @JsonProperty("save_date") + private Long saveDate; + @JsonProperty("version") + private Long version; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public Sample withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("user") + public String getUser() { + return user; + } + + @JsonProperty("user") + public void setUser(String user) { + this.user = user; + } + + public Sample withUser(String user) { + this.user = user; + return this; + } + + @JsonProperty("node_tree") + public List getNodeTree() { + return nodeTree; + } + + @JsonProperty("node_tree") + public void setNodeTree(List nodeTree) { + this.nodeTree = nodeTree; + } + + public Sample withNodeTree(List nodeTree) { + this.nodeTree = nodeTree; + return this; + } + + @JsonProperty("name") + public String getName() { + return name; + } + + @JsonProperty("name") + public void setName(String name) { + this.name = name; + } + + public Sample withName(String name) { + this.name = name; + return this; + } + + @JsonProperty("save_date") + public Long getSaveDate() { + return saveDate; + } + + @JsonProperty("save_date") + public void setSaveDate(Long saveDate) { + this.saveDate = saveDate; + } + + public Sample withSaveDate(Long saveDate) { + this.saveDate = saveDate; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public Sample withVersion(Long version) { + this.version = version; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((((((("Sample"+" [id=")+ id)+", user=")+ user)+", nodeTree=")+ nodeTree)+", name=")+ name)+", saveDate=")+ saveDate)+", version=")+ version)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/SampleACLs.java b/src/main/java/us/kbase/sampleservice/SampleACLs.java new file mode 100644 index 00000000..875e24f9 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/SampleACLs.java @@ -0,0 +1,141 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: SampleACLs

+ * 
+ * Access control lists for a sample. Access levels include the privileges of the lower
+ * access levels.
+ * owner - the user that created and owns the sample.
+ * admin - users that can administrate (e.g. alter ACLs) the sample.
+ * write - users that can write (e.g. create a new version) to the sample.
+ * read - users that can view the sample.
+ * public_read - whether any user can read the sample, regardless of permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "owner", + "admin", + "write", + "read", + "public_read" +}) +public class SampleACLs { + + @JsonProperty("owner") + private java.lang.String owner; + @JsonProperty("admin") + private List admin; + @JsonProperty("write") + private List write; + @JsonProperty("read") + private List read; + @JsonProperty("public_read") + private Long publicRead; + private Map additionalProperties = new HashMap(); + + @JsonProperty("owner") + public java.lang.String getOwner() { + return owner; + } + + @JsonProperty("owner") + public void setOwner(java.lang.String owner) { + this.owner = owner; + } + + public SampleACLs withOwner(java.lang.String owner) { + this.owner = owner; + return this; + } + + @JsonProperty("admin") + public List getAdmin() { + return admin; + } + + @JsonProperty("admin") + public void setAdmin(List admin) { + this.admin = admin; + } + + public SampleACLs withAdmin(List admin) { + this.admin = admin; + return this; + } + + @JsonProperty("write") + public List getWrite() { + return write; + } + + @JsonProperty("write") + public void setWrite(List write) { + this.write = write; + } + + public SampleACLs withWrite(List write) { + this.write = write; + return this; + } + + @JsonProperty("read") + public List getRead() { + return read; + } + + @JsonProperty("read") + public void setRead(List read) { + this.read = read; + } + + public SampleACLs withRead(List read) { + this.read = read; + return this; + } + + @JsonProperty("public_read") + public Long getPublicRead() { + return publicRead; + } + + @JsonProperty("public_read") + public void setPublicRead(Long publicRead) { + this.publicRead = publicRead; + } + + public SampleACLs withPublicRead(Long publicRead) { + this.publicRead = publicRead; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((((((((("SampleACLs"+" [owner=")+ owner)+", admin=")+ admin)+", write=")+ write)+", read=")+ read)+", publicRead=")+ publicRead)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/SampleAddress.java b/src/main/java/us/kbase/sampleservice/SampleAddress.java new file mode 100644 index 00000000..44418112 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/SampleAddress.java @@ -0,0 +1,82 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: SampleAddress

+ * 
+ * A Sample ID and version.
+ * id - the ID of the sample.
+ * version - the version of the sample.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "version" +}) +public class SampleAddress { + + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public SampleAddress withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public SampleAddress withVersion(Long version) { + this.version = version; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((("SampleAddress"+" [id=")+ id)+", version=")+ version)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/SampleIdentifier.java b/src/main/java/us/kbase/sampleservice/SampleIdentifier.java new file mode 100644 index 00000000..a4eab121 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/SampleIdentifier.java @@ -0,0 +1,78 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: SampleIdentifier

+ * + * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "version" +}) +public class SampleIdentifier { + + @JsonProperty("id") + private String id; + @JsonProperty("version") + private Long version; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public String getId() { + return id; + } + + @JsonProperty("id") + public void setId(String id) { + this.id = id; + } + + public SampleIdentifier withId(String id) { + this.id = id; + return this; + } + + @JsonProperty("version") + public Long getVersion() { + return version; + } + + @JsonProperty("version") + public void setVersion(Long version) { + this.version = version; + } + + public SampleIdentifier withVersion(Long version) { + this.version = version; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((("SampleIdentifier"+" [id=")+ id)+", version=")+ version)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/SampleNode.java b/src/main/java/us/kbase/sampleservice/SampleNode.java new file mode 100644 index 00000000..5f56e5ef --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/SampleNode.java @@ -0,0 +1,167 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; +import us.kbase.common.service.UObject; + + +/** + *

Original spec-file type: SampleNode

+ * 
+ * A node in a sample tree.
+ * id - the ID of the node.
+ * parent - the id of the parent node for the current node. BioReplicate nodes, and only
+ *     BioReplicate nodes, do not have a parent.
+ * type - the type of the node.
+ * meta_controlled - metadata restricted by the sample controlled vocabulary and validators.
+ * source_meta - the pre-transformation keys and values of the controlled metadata at the
+ *     data source for controlled metadata keys. In some cases the source metadata
+ *     may be transformed prior to ingestion by the Sample Service; the contents of this
+ *     data structure allows for reconstructing the original representation. The metadata
+ *     here is not validated other than basic size checks and is provided on an
+ *     informational basis only. The metadata keys in the SourceMetadata data structure
+ *     must be a subset of the meta_controlled mapping keys.
+ * meta_user - unrestricted metadata.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "parent", + "type", + "meta_controlled", + "source_meta", + "meta_user" +}) +public class SampleNode { + + @JsonProperty("id") + private java.lang.String id; + @JsonProperty("parent") + private java.lang.String parent; + @JsonProperty("type") + private java.lang.String type; + @JsonProperty("meta_controlled") + private Map> metaControlled; + @JsonProperty("source_meta") + private List sourceMeta; + @JsonProperty("meta_user") + private Map> metaUser; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public java.lang.String getId() { + return id; + } + + @JsonProperty("id") + public void setId(java.lang.String id) { + this.id = id; + } + + public SampleNode withId(java.lang.String id) { + this.id = id; + return this; + } + + @JsonProperty("parent") + public java.lang.String getParent() { + return parent; + } + + @JsonProperty("parent") + public void setParent(java.lang.String parent) { + this.parent = parent; + } + + public SampleNode withParent(java.lang.String parent) { + this.parent = parent; + return this; + } + + @JsonProperty("type") + public java.lang.String getType() { + return type; + } + + @JsonProperty("type") + public void setType(java.lang.String type) { + this.type = type; + } + + public SampleNode withType(java.lang.String type) { + this.type = type; + return this; + } + + @JsonProperty("meta_controlled") + public Map> getMetaControlled() { + return metaControlled; + } + + @JsonProperty("meta_controlled") + public void setMetaControlled(Map> metaControlled) { + this.metaControlled = metaControlled; + } + + public SampleNode withMetaControlled(Map> metaControlled) { + this.metaControlled = metaControlled; + return this; + } + + @JsonProperty("source_meta") + public List getSourceMeta() { + return sourceMeta; + } + + @JsonProperty("source_meta") + public void setSourceMeta(List sourceMeta) { + this.sourceMeta = sourceMeta; + } + + public SampleNode withSourceMeta(List sourceMeta) { + this.sourceMeta = sourceMeta; + return this; + } + + @JsonProperty("meta_user") + public Map> getMetaUser() { + return metaUser; + } + + @JsonProperty("meta_user") + public void setMetaUser(Map> metaUser) { + this.metaUser = metaUser; + } + + public SampleNode withMetaUser(Map> metaUser) { + this.metaUser = metaUser; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((((((((((("SampleNode"+" [id=")+ id)+", parent=")+ parent)+", type=")+ type)+", metaControlled=")+ metaControlled)+", sourceMeta=")+ sourceMeta)+", metaUser=")+ metaUser)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/SampleServiceClient.java b/src/main/java/us/kbase/sampleservice/SampleServiceClient.java new file mode 100644 index 00000000..877011d3 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/SampleServiceClient.java @@ -0,0 +1,527 @@ +package us.kbase.sampleservice; + +import com.fasterxml.jackson.core.type.TypeReference; +import java.io.File; +import java.io.IOException; +import java.net.MalformedURLException; +import java.net.URL; +import java.util.ArrayList; +import java.util.List; +import java.util.Map; +import us.kbase.auth.AuthToken; +import us.kbase.common.service.JsonClientCaller; +import us.kbase.common.service.JsonClientException; +import us.kbase.common.service.RpcContext; +import us.kbase.common.service.UnauthorizedException; + +/** + *

Original spec-file module name: SampleService

+ * 
+ * A KBase module: SampleService
+ * Handles creating, updating, retriving samples and linking data to samples.
+ * Note that usage of the administration flags will be logged by the service.
+ *
+ */ +public class SampleServiceClient { + private JsonClientCaller caller; + private String serviceVersion = null; + private static URL DEFAULT_URL = null; + static { + try { + DEFAULT_URL = new URL("https://ci.kbase.us/services/sampleservice"); + } catch (MalformedURLException mue) { + throw new RuntimeException("Compile error in client - bad url compiled"); + } + } + + /** Constructs a client with the default url and no user credentials.*/ + public SampleServiceClient() { + caller = new JsonClientCaller(DEFAULT_URL); + } + + + /** Constructs a client with a custom URL and no user credentials. + * @param url the URL of the service. + */ + public SampleServiceClient(URL url) { + caller = new JsonClientCaller(url); + } + /** Constructs a client with a custom URL. + * @param url the URL of the service. + * @param token the user's authorization token. + * @throws UnauthorizedException if the token is not valid. + * @throws IOException if an IOException occurs when checking the token's + * validity. + */ + public SampleServiceClient(URL url, AuthToken token) throws UnauthorizedException, IOException { + caller = new JsonClientCaller(url, token); + } + + /** Constructs a client with a custom URL. + * @param url the URL of the service. + * @param user the user name. + * @param password the password for the user name. + * @throws UnauthorizedException if the credentials are not valid. + * @throws IOException if an IOException occurs when checking the user's + * credentials. + */ + public SampleServiceClient(URL url, String user, String password) throws UnauthorizedException, IOException { + caller = new JsonClientCaller(url, user, password); + } + + /** Constructs a client with a custom URL + * and a custom authorization service URL. + * @param url the URL of the service. + * @param user the user name. + * @param password the password for the user name. + * @param auth the URL of the authorization server. + * @throws UnauthorizedException if the credentials are not valid. + * @throws IOException if an IOException occurs when checking the user's + * credentials. + */ + public SampleServiceClient(URL url, String user, String password, URL auth) throws UnauthorizedException, IOException { + caller = new JsonClientCaller(url, user, password, auth); + } + + /** Constructs a client with the default URL. + * @param token the user's authorization token. + * @throws UnauthorizedException if the token is not valid. + * @throws IOException if an IOException occurs when checking the token's + * validity. + */ + public SampleServiceClient(AuthToken token) throws UnauthorizedException, IOException { + caller = new JsonClientCaller(DEFAULT_URL, token); + } + + /** Constructs a client with the default URL. + * @param user the user name. + * @param password the password for the user name. + * @throws UnauthorizedException if the credentials are not valid. + * @throws IOException if an IOException occurs when checking the user's + * credentials. + */ + public SampleServiceClient(String user, String password) throws UnauthorizedException, IOException { + caller = new JsonClientCaller(DEFAULT_URL, user, password); + } + + /** Get the token this client uses to communicate with the server. + * @return the authorization token. + */ + public AuthToken getToken() { + return caller.getToken(); + } + + /** Get the URL of the service with which this client communicates. + * @return the service URL. + */ + public URL getURL() { + return caller.getURL(); + } + + /** Set the timeout between establishing a connection to a server and + * receiving a response. A value of zero or null implies no timeout. + * @param milliseconds the milliseconds to wait before timing out when + * attempting to read from a server. + */ + public void setConnectionReadTimeOut(Integer milliseconds) { + this.caller.setConnectionReadTimeOut(milliseconds); + } + + /** Check if this client allows insecure http (vs https) connections. + * @return true if insecure connections are allowed. + */ + public boolean isInsecureHttpConnectionAllowed() { + return caller.isInsecureHttpConnectionAllowed(); + } + + /** Deprecated. Use isInsecureHttpConnectionAllowed(). + * @deprecated + */ + public boolean isAuthAllowedForHttp() { + return caller.isAuthAllowedForHttp(); + } + + /** Set whether insecure http (vs https) connections should be allowed by + * this client. + * @param allowed true to allow insecure connections. Default false + */ + public void setIsInsecureHttpConnectionAllowed(boolean allowed) { + caller.setInsecureHttpConnectionAllowed(allowed); + } + + /** Deprecated. Use setIsInsecureHttpConnectionAllowed(). + * @deprecated + */ + public void setAuthAllowedForHttp(boolean isAuthAllowedForHttp) { + caller.setAuthAllowedForHttp(isAuthAllowedForHttp); + } + + /** Set whether all SSL certificates, including self-signed certificates, + * should be trusted. + * @param trustAll true to trust all certificates. Default false. + */ + public void setAllSSLCertificatesTrusted(final boolean trustAll) { + caller.setAllSSLCertificatesTrusted(trustAll); + } + + /** Check if this client trusts all SSL certificates, including + * self-signed certificates. + * @return true if all certificates are trusted. + */ + public boolean isAllSSLCertificatesTrusted() { + return caller.isAllSSLCertificatesTrusted(); + } + /** Sets streaming mode on. In this case, the data will be streamed to + * the server in chunks as it is read from disk rather than buffered in + * memory. Many servers are not compatible with this feature. + * @param streamRequest true to set streaming mode on, false otherwise. + */ + public void setStreamingModeOn(boolean streamRequest) { + caller.setStreamingModeOn(streamRequest); + } + + /** Returns true if streaming mode is on. + * @return true if streaming mode is on. + */ + public boolean isStreamingModeOn() { + return caller.isStreamingModeOn(); + } + + public void _setFileForNextRpcResponse(File f) { + caller.setFileForNextRpcResponse(f); + } + + public String getServiceVersion() { + return this.serviceVersion; + } + + public void setServiceVersion(String newValue) { + this.serviceVersion = newValue; + } + + /** + *

Original spec-file function name: create_sample

+ * 
+     * Create a new sample or a sample version.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.CreateSampleParams CreateSampleParams} + * @return parameter "address" of type {@link us.kbase.sampleservice.SampleAddress SampleAddress} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public SampleAddress createSample(CreateSampleParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.create_sample", args, retType, true, true, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_sample

+ * 
+     * Get a sample. If the version is omitted the most recent sample is returned.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetSampleParams GetSampleParams} + * @return parameter "sample" of type {@link us.kbase.sampleservice.Sample Sample} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public Sample getSample(GetSampleParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_sample", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_samples

+ * 
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetSamplesParams GetSamplesParams} + * @return parameter "samples" of list of type {@link us.kbase.sampleservice.Sample Sample} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public List getSamples(GetSamplesParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference>> retType = new TypeReference>>() {}; + List> res = caller.jsonrpcCall("SampleService.get_samples", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_sample_acls

+ * 
+     * Get a sample's ACLs.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetSampleACLsParams GetSampleACLsParams} + * @return parameter "acls" of type {@link us.kbase.sampleservice.SampleACLs SampleACLs} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public SampleACLs getSampleAcls(GetSampleACLsParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_sample_acls", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: update_sample_acls

+ * 
+     * Update a sample's ACLs.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.UpdateSampleACLsParams UpdateSampleACLsParams} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public void updateSampleAcls(UpdateSampleACLsParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference retType = new TypeReference() {}; + caller.jsonrpcCall("SampleService.update_sample_acls", args, retType, false, true, jsonRpcContext, this.serviceVersion); + } + + /** + *

Original spec-file function name: update_samples_acls

+ * 
+     * Update the ACLs of many samples.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.UpdateSamplesACLsParams UpdateSamplesACLsParams} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public void updateSamplesAcls(UpdateSamplesACLsParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference retType = new TypeReference() {}; + caller.jsonrpcCall("SampleService.update_samples_acls", args, retType, false, true, jsonRpcContext, this.serviceVersion); + } + + /** + *

Original spec-file function name: replace_sample_acls

+ * 
+     * Completely overwrite a sample's ACLs. Any current ACLs are replaced by the provided
+     * ACLs, even if empty, and gone forever.
+     * The sample owner cannot be changed via this method.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.ReplaceSampleACLsParams ReplaceSampleACLsParams} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public void replaceSampleAcls(ReplaceSampleACLsParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference retType = new TypeReference() {}; + caller.jsonrpcCall("SampleService.replace_sample_acls", args, retType, false, true, jsonRpcContext, this.serviceVersion); + } + + /** + *

Original spec-file function name: get_metadata_key_static_metadata

+ * 
+     * Get static metadata for one or more metadata keys.
+     *         The static metadata for a metadata key is metadata *about* the key - e.g. it may
+     *         define the key's semantics or denote that the key is linked to an ontological ID.
+     *         The static metadata does not change without the service being restarted. Client caching is
+     *         recommended to improve performance.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetMetadataKeyStaticMetadataParams GetMetadataKeyStaticMetadataParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.GetMetadataKeyStaticMetadataResults GetMetadataKeyStaticMetadataResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public GetMetadataKeyStaticMetadataResults getMetadataKeyStaticMetadata(GetMetadataKeyStaticMetadataParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_metadata_key_static_metadata", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: create_data_link

+ * 
+     * Create a link from a KBase Workspace object to a sample.
+     *         The user must have admin permissions for the sample and write permissions for the
+     *         Workspace object.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.CreateDataLinkParams CreateDataLinkParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.CreateDataLinkResults CreateDataLinkResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public CreateDataLinkResults createDataLink(CreateDataLinkParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.create_data_link", args, retType, true, true, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: propagate_data_links

+ * 
+     * Propagates data links from a previous sample to the current (latest) version
+     *         The user must have admin permissions for the sample and write permissions for the
+     *         Workspace object.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.PropagateDataLinkParams PropagateDataLinkParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.PropagateDataLinkResults PropagateDataLinkResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public PropagateDataLinkResults propagateDataLinks(PropagateDataLinkParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.propagate_data_links", args, retType, true, true, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: expire_data_link

+ * 
+     * Expire a link from a KBase Workspace object.
+     *         The user must have admin permissions for the sample and write permissions for the
+     *         Workspace object.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.ExpireDataLinkParams ExpireDataLinkParams} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public void expireDataLink(ExpireDataLinkParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference retType = new TypeReference() {}; + caller.jsonrpcCall("SampleService.expire_data_link", args, retType, false, true, jsonRpcContext, this.serviceVersion); + } + + /** + *

Original spec-file function name: get_data_links_from_sample

+ * 
+     * Get data links to Workspace objects originating from a sample.
+     *         The user must have read permissions to the sample. Only Workspace objects the user
+     *         can read are returned.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetDataLinksFromSampleParams GetDataLinksFromSampleParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.GetDataLinksFromSampleResults GetDataLinksFromSampleResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public GetDataLinksFromSampleResults getDataLinksFromSample(GetDataLinksFromSampleParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_data_links_from_sample", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_data_links_from_sample_set

+ * 
+     * Get all workspace object metadata linked to samples in a list of samples or sample set
+     * refs. Returns metadata about links to data objects. A batch version of
+     * get_data_links_from_sample.
+     * The user must have read permissions to the sample. A permissions error is thrown when a
+     * sample is found that the user has no access to.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetDataLinksFromSampleSetParams GetDataLinksFromSampleSetParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.GetDataLinksFromSampleResults GetDataLinksFromSampleResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public GetDataLinksFromSampleResults getDataLinksFromSampleSet(GetDataLinksFromSampleSetParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_data_links_from_sample_set", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_data_links_from_data

+ * 
+     * Get data links to samples originating from Workspace data.
+     *         The user must have read permissions to the workspace data.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetDataLinksFromDataParams GetDataLinksFromDataParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.GetDataLinksFromDataResults GetDataLinksFromDataResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public GetDataLinksFromDataResults getDataLinksFromData(GetDataLinksFromDataParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_data_links_from_data", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_sample_via_data

+ * 
+     * Get a sample via a workspace object. Read permissions to a workspace object grants
+     * read permissions to all versions of any linked samples, whether the links are expired or
+     * not. This method allows for fetching samples when the user does not have explicit
+     * read access to the sample.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetSampleViaDataParams GetSampleViaDataParams} + * @return parameter "sample" of type {@link us.kbase.sampleservice.Sample Sample} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public Sample getSampleViaData(GetSampleViaDataParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_sample_via_data", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: get_data_link

+ * 
+     * Get a link, expired or not, by its ID. This method requires read administration privileges
+     * for the service.
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.GetDataLinkParams GetDataLinkParams} + * @return parameter "link" of type {@link us.kbase.sampleservice.DataLink DataLink} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public DataLink getDataLink(GetDataLinkParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.get_data_link", args, retType, true, true, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + /** + *

Original spec-file function name: validate_samples

+ * 
+     *
+ * @param params instance of type {@link us.kbase.sampleservice.ValidateSamplesParams ValidateSamplesParams} + * @return parameter "results" of type {@link us.kbase.sampleservice.ValidateSamplesResults ValidateSamplesResults} + * @throws IOException if an IO exception occurs + * @throws JsonClientException if a JSON RPC exception occurs + */ + public ValidateSamplesResults validateSamples(ValidateSamplesParams params, RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + args.add(params); + TypeReference> retType = new TypeReference>() {}; + List res = caller.jsonrpcCall("SampleService.validate_samples", args, retType, true, true, jsonRpcContext, this.serviceVersion); + return res.get(0); + } + + public Map status(RpcContext... jsonRpcContext) throws IOException, JsonClientException { + List args = new ArrayList(); + TypeReference>> retType = new TypeReference>>() {}; + List> res = caller.jsonrpcCall("SampleService.status", args, retType, true, false, jsonRpcContext, this.serviceVersion); + return res.get(0); + } +} diff --git a/src/main/java/us/kbase/sampleservice/SourceMetadata.java b/src/main/java/us/kbase/sampleservice/SourceMetadata.java new file mode 100644 index 00000000..a0670c45 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/SourceMetadata.java @@ -0,0 +1,104 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; +import us.kbase.common.service.UObject; + + +/** + *

Original spec-file type: SourceMetadata

+ * 
+ * Information about a metadata key as it appeared at the data source.
+ * The source key and value represents the original state of the metadata before it was
+ * tranformed for ingestion by the sample service.
+ * key - the metadata key.
+ * skey - the key as it appeared at the data source.
+ * svalue - the value as it appeared at the data source.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "key", + "skey", + "svalue" +}) +public class SourceMetadata { + + @JsonProperty("key") + private java.lang.String key; + @JsonProperty("skey") + private java.lang.String skey; + @JsonProperty("svalue") + private Map svalue; + private Map additionalProperties = new HashMap(); + + @JsonProperty("key") + public java.lang.String getKey() { + return key; + } + + @JsonProperty("key") + public void setKey(java.lang.String key) { + this.key = key; + } + + public SourceMetadata withKey(java.lang.String key) { + this.key = key; + return this; + } + + @JsonProperty("skey") + public java.lang.String getSkey() { + return skey; + } + + @JsonProperty("skey") + public void setSkey(java.lang.String skey) { + this.skey = skey; + } + + public SourceMetadata withSkey(java.lang.String skey) { + this.skey = skey; + return this; + } + + @JsonProperty("svalue") + public Map getSvalue() { + return svalue; + } + + @JsonProperty("svalue") + public void setSvalue(Map svalue) { + this.svalue = svalue; + } + + public SourceMetadata withSvalue(Map svalue) { + this.svalue = svalue; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((((("SourceMetadata"+" [key=")+ key)+", skey=")+ skey)+", svalue=")+ svalue)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/UpdateSampleACLsParams.java b/src/main/java/us/kbase/sampleservice/UpdateSampleACLsParams.java new file mode 100644 index 00000000..ca515532 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/UpdateSampleACLsParams.java @@ -0,0 +1,207 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: UpdateSampleACLsParams

+ * 
+ * update_sample_acls parameters.
+ *         id - the ID of the sample to modify.
+ *         admin - a list of users that will receive admin privileges. Default none.
+ *         write - a list of users that will receive write privileges. Default none.
+ *         read - a list of users that will receive read privileges. Default none.
+ *         remove - a list of users that will have all privileges removed. Default none.
+ *         public_read - an integer that determines whether the sample will be set to publicly
+ *             readable:
+ *             > 0: public read.
+ *             0: No change (the default).
+ *             < 0: private.
+ *         at_least - false, the default, indicates that the users should get the exact permissions
+ *             as specified in the user lists, which may mean a reduction in permissions. If true,
+ *             users that already exist in the sample ACLs will not have their permissions reduced
+ *             as part of the ACL update unless they are in the remove list. E.g. if a user has
+ *             write permissions and read permissions are specified in the update, no changes will
+ *             be made to the user's permission.
+ *         as_admin - update the sample acls regardless of sample ACL contents as long as the user has
+ *             full service administration permissions.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "id", + "admin", + "write", + "read", + "remove", + "public_read", + "at_least", + "as_admin" +}) +public class UpdateSampleACLsParams { + + @JsonProperty("id") + private java.lang.String id; + @JsonProperty("admin") + private List admin; + @JsonProperty("write") + private List write; + @JsonProperty("read") + private List read; + @JsonProperty("remove") + private List remove; + @JsonProperty("public_read") + private Long publicRead; + @JsonProperty("at_least") + private Long atLeast; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("id") + public java.lang.String getId() { + return id; + } + + @JsonProperty("id") + public void setId(java.lang.String id) { + this.id = id; + } + + public UpdateSampleACLsParams withId(java.lang.String id) { + this.id = id; + return this; + } + + @JsonProperty("admin") + public List getAdmin() { + return admin; + } + + @JsonProperty("admin") + public void setAdmin(List admin) { + this.admin = admin; + } + + public UpdateSampleACLsParams withAdmin(List admin) { + this.admin = admin; + return this; + } + + @JsonProperty("write") + public List getWrite() { + return write; + } + + @JsonProperty("write") + public void setWrite(List write) { + this.write = write; + } + + public UpdateSampleACLsParams withWrite(List write) { + this.write = write; + return this; + } + + @JsonProperty("read") + public List getRead() { + return read; + } + + @JsonProperty("read") + public void setRead(List read) { + this.read = read; + } + + public UpdateSampleACLsParams withRead(List read) { + this.read = read; + return this; + } + + @JsonProperty("remove") + public List getRemove() { + return remove; + } + + @JsonProperty("remove") + public void setRemove(List remove) { + this.remove = remove; + } + + public UpdateSampleACLsParams withRemove(List remove) { + this.remove = remove; + return this; + } + + @JsonProperty("public_read") + public Long getPublicRead() { + return publicRead; + } + + @JsonProperty("public_read") + public void setPublicRead(Long publicRead) { + this.publicRead = publicRead; + } + + public UpdateSampleACLsParams withPublicRead(Long publicRead) { + this.publicRead = publicRead; + return this; + } + + @JsonProperty("at_least") + public Long getAtLeast() { + return atLeast; + } + + @JsonProperty("at_least") + public void setAtLeast(Long atLeast) { + this.atLeast = atLeast; + } + + public UpdateSampleACLsParams withAtLeast(Long atLeast) { + this.atLeast = atLeast; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public UpdateSampleACLsParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((((((((((((((("UpdateSampleACLsParams"+" [id=")+ id)+", admin=")+ admin)+", write=")+ write)+", read=")+ read)+", remove=")+ remove)+", publicRead=")+ publicRead)+", atLeast=")+ atLeast)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/UpdateSamplesACLsParams.java b/src/main/java/us/kbase/sampleservice/UpdateSamplesACLsParams.java new file mode 100644 index 00000000..17190332 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/UpdateSamplesACLsParams.java @@ -0,0 +1,191 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: UpdateSamplesACLsParams

+ * 
+ * update_samples_acls parameters.
+ *         These parameters are the same as update_sample_acls, except:
+ *         ids - a list of IDs of samples to modify.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "ids", + "admin", + "write", + "read", + "remove", + "public_read", + "at_least", + "as_admin" +}) +public class UpdateSamplesACLsParams { + + @JsonProperty("ids") + private List ids; + @JsonProperty("admin") + private List admin; + @JsonProperty("write") + private List write; + @JsonProperty("read") + private List read; + @JsonProperty("remove") + private List remove; + @JsonProperty("public_read") + private Long publicRead; + @JsonProperty("at_least") + private Long atLeast; + @JsonProperty("as_admin") + private Long asAdmin; + private Map additionalProperties = new HashMap(); + + @JsonProperty("ids") + public List getIds() { + return ids; + } + + @JsonProperty("ids") + public void setIds(List ids) { + this.ids = ids; + } + + public UpdateSamplesACLsParams withIds(List ids) { + this.ids = ids; + return this; + } + + @JsonProperty("admin") + public List getAdmin() { + return admin; + } + + @JsonProperty("admin") + public void setAdmin(List admin) { + this.admin = admin; + } + + public UpdateSamplesACLsParams withAdmin(List admin) { + this.admin = admin; + return this; + } + + @JsonProperty("write") + public List getWrite() { + return write; + } + + @JsonProperty("write") + public void setWrite(List write) { + this.write = write; + } + + public UpdateSamplesACLsParams withWrite(List write) { + this.write = write; + return this; + } + + @JsonProperty("read") + public List getRead() { + return read; + } + + @JsonProperty("read") + public void setRead(List read) { + this.read = read; + } + + public UpdateSamplesACLsParams withRead(List read) { + this.read = read; + return this; + } + + @JsonProperty("remove") + public List getRemove() { + return remove; + } + + @JsonProperty("remove") + public void setRemove(List remove) { + this.remove = remove; + } + + public UpdateSamplesACLsParams withRemove(List remove) { + this.remove = remove; + return this; + } + + @JsonProperty("public_read") + public Long getPublicRead() { + return publicRead; + } + + @JsonProperty("public_read") + public void setPublicRead(Long publicRead) { + this.publicRead = publicRead; + } + + public UpdateSamplesACLsParams withPublicRead(Long publicRead) { + this.publicRead = publicRead; + return this; + } + + @JsonProperty("at_least") + public Long getAtLeast() { + return atLeast; + } + + @JsonProperty("at_least") + public void setAtLeast(Long atLeast) { + this.atLeast = atLeast; + } + + public UpdateSamplesACLsParams withAtLeast(Long atLeast) { + this.atLeast = atLeast; + return this; + } + + @JsonProperty("as_admin") + public Long getAsAdmin() { + return asAdmin; + } + + @JsonProperty("as_admin") + public void setAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + } + + public UpdateSamplesACLsParams withAsAdmin(Long asAdmin) { + this.asAdmin = asAdmin; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(java.lang.String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public java.lang.String toString() { + return ((((((((((((((((((("UpdateSamplesACLsParams"+" [ids=")+ ids)+", admin=")+ admin)+", write=")+ write)+", read=")+ read)+", remove=")+ remove)+", publicRead=")+ publicRead)+", atLeast=")+ atLeast)+", asAdmin=")+ asAdmin)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/ValidateSamplesError.java b/src/main/java/us/kbase/sampleservice/ValidateSamplesError.java new file mode 100644 index 00000000..ab8a48ee --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/ValidateSamplesError.java @@ -0,0 +1,150 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: ValidateSamplesError

+ * + * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "message", + "dev_message", + "sample_name", + "node", + "key", + "subkey" +}) +public class ValidateSamplesError { + + @JsonProperty("message") + private String message; + @JsonProperty("dev_message") + private String devMessage; + @JsonProperty("sample_name") + private String sampleName; + @JsonProperty("node") + private String node; + @JsonProperty("key") + private String key; + @JsonProperty("subkey") + private String subkey; + private Map additionalProperties = new HashMap(); + + @JsonProperty("message") + public String getMessage() { + return message; + } + + @JsonProperty("message") + public void setMessage(String message) { + this.message = message; + } + + public ValidateSamplesError withMessage(String message) { + this.message = message; + return this; + } + + @JsonProperty("dev_message") + public String getDevMessage() { + return devMessage; + } + + @JsonProperty("dev_message") + public void setDevMessage(String devMessage) { + this.devMessage = devMessage; + } + + public ValidateSamplesError withDevMessage(String devMessage) { + this.devMessage = devMessage; + return this; + } + + @JsonProperty("sample_name") + public String getSampleName() { + return sampleName; + } + + @JsonProperty("sample_name") + public void setSampleName(String sampleName) { + this.sampleName = sampleName; + } + + public ValidateSamplesError withSampleName(String sampleName) { + this.sampleName = sampleName; + return this; + } + + @JsonProperty("node") + public String getNode() { + return node; + } + + @JsonProperty("node") + public void setNode(String node) { + this.node = node; + } + + public ValidateSamplesError withNode(String node) { + this.node = node; + return this; + } + + @JsonProperty("key") + public String getKey() { + return key; + } + + @JsonProperty("key") + public void setKey(String key) { + this.key = key; + } + + public ValidateSamplesError withKey(String key) { + this.key = key; + return this; + } + + @JsonProperty("subkey") + public String getSubkey() { + return subkey; + } + + @JsonProperty("subkey") + public void setSubkey(String subkey) { + this.subkey = subkey; + } + + public ValidateSamplesError withSubkey(String subkey) { + this.subkey = subkey; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((((((((((((("ValidateSamplesError"+" [message=")+ message)+", devMessage=")+ devMessage)+", sampleName=")+ sampleName)+", node=")+ node)+", key=")+ key)+", subkey=")+ subkey)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/ValidateSamplesParams.java b/src/main/java/us/kbase/sampleservice/ValidateSamplesParams.java new file mode 100644 index 00000000..b5ae67b2 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/ValidateSamplesParams.java @@ -0,0 +1,63 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: ValidateSamplesParams

+ * 
+ * Provide sample and run through the validation steps, but without saving them. Allows all the samples to be evaluated for validity first so potential errors can be addressed.
+ *
+ * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "samples" +}) +public class ValidateSamplesParams { + + @JsonProperty("samples") + private List samples; + private Map additionalProperties = new HashMap(); + + @JsonProperty("samples") + public List getSamples() { + return samples; + } + + @JsonProperty("samples") + public void setSamples(List samples) { + this.samples = samples; + } + + public ValidateSamplesParams withSamples(List samples) { + this.samples = samples; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((("ValidateSamplesParams"+" [samples=")+ samples)+", additionalProperties=")+ additionalProperties)+"]"); + } + +} diff --git a/src/main/java/us/kbase/sampleservice/ValidateSamplesResults.java b/src/main/java/us/kbase/sampleservice/ValidateSamplesResults.java new file mode 100644 index 00000000..e0e73fc5 --- /dev/null +++ b/src/main/java/us/kbase/sampleservice/ValidateSamplesResults.java @@ -0,0 +1,61 @@ + +package us.kbase.sampleservice; + +import java.util.HashMap; +import java.util.List; +import java.util.Map; +import javax.annotation.Generated; +import com.fasterxml.jackson.annotation.JsonAnyGetter; +import com.fasterxml.jackson.annotation.JsonAnySetter; +import com.fasterxml.jackson.annotation.JsonInclude; +import com.fasterxml.jackson.annotation.JsonProperty; +import com.fasterxml.jackson.annotation.JsonPropertyOrder; + + +/** + *

Original spec-file type: ValidateSamplesResults

+ * + * + */ +@JsonInclude(JsonInclude.Include.NON_NULL) +@Generated("com.googlecode.jsonschema2pojo") +@JsonPropertyOrder({ + "errors" +}) +public class ValidateSamplesResults { + + @JsonProperty("errors") + private List errors; + private Map additionalProperties = new HashMap(); + + @JsonProperty("errors") + public List getErrors() { + return errors; + } + + @JsonProperty("errors") + public void setErrors(List errors) { + this.errors = errors; + } + + public ValidateSamplesResults withErrors(List errors) { + this.errors = errors; + return this; + } + + @JsonAnyGetter + public Map getAdditionalProperties() { + return this.additionalProperties; + } + + @JsonAnySetter + public void setAdditionalProperties(String name, Object value) { + this.additionalProperties.put(name, value); + } + + @Override + public String toString() { + return ((((("ValidateSamplesResults"+" [errors=")+ errors)+", additionalProperties=")+ additionalProperties)+"]"); + } + +}