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NetcdfIT.java
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NetcdfIT.java
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package edu.harvard.iq.dataverse.api;
import io.restassured.RestAssured;
import io.restassured.path.json.JsonPath;
import io.restassured.response.Response;
import java.io.File;
import java.io.IOException;
import java.nio.file.Path;
import java.nio.file.Paths;
import jakarta.json.Json;
import static jakarta.ws.rs.core.Response.Status.CREATED;
import static jakarta.ws.rs.core.Response.Status.FORBIDDEN;
import static jakarta.ws.rs.core.Response.Status.NOT_FOUND;
import static jakarta.ws.rs.core.Response.Status.OK;
import org.hamcrest.CoreMatchers;
import static org.hamcrest.CoreMatchers.equalTo;
import org.junit.jupiter.api.BeforeAll;
import org.junit.jupiter.api.Test;
public class NetcdfIT {
@BeforeAll
public static void setUp() {
RestAssured.baseURI = UtilIT.getRestAssuredBaseUri();
}
@Test
public void testNmclFromNetcdf() throws IOException {
Response createUser = UtilIT.createRandomUser();
createUser.then().assertThat().statusCode(OK.getStatusCode());
String apiToken = UtilIT.getApiTokenFromResponse(createUser);
String username = UtilIT.getUsernameFromResponse(createUser);
Response createDataverseResponse = UtilIT.createRandomDataverse(apiToken);
createDataverseResponse.prettyPrint();
createDataverseResponse.then().assertThat()
.statusCode(CREATED.getStatusCode());
String dataverseAlias = UtilIT.getAliasFromResponse(createDataverseResponse);
Response createDataset = UtilIT.createRandomDatasetViaNativeApi(dataverseAlias, apiToken);
createDataset.prettyPrint();
createDataset.then().assertThat()
.statusCode(CREATED.getStatusCode());
Integer datasetId = UtilIT.getDatasetIdFromResponse(createDataset);
String datasetPid = UtilIT.getDatasetPersistentIdFromResponse(createDataset);
String pathToFile = "src/test/resources/netcdf/madis-raob";
Response uploadFile = UtilIT.uploadFileViaNative(datasetId.toString(), pathToFile, apiToken);
uploadFile.prettyPrint();
uploadFile.then().assertThat().statusCode(OK.getStatusCode());
long fileId = JsonPath.from(uploadFile.body().asString()).getLong("data.files[0].dataFile.id");
String tag = "NcML";
String version = "0.1";
Response downloadNcml = UtilIT.downloadAuxFile(fileId, tag, version, apiToken);
//downloadNcml.prettyPrint(); // long output
downloadNcml.then().assertThat()
.statusCode(OK.getStatusCode())
.contentType("text/xml; name=\"madis-raob.ncml_0.1.xml\";charset=UTF-8");
Response deleteNcml = UtilIT.deleteAuxFile(fileId, tag, version, apiToken);
deleteNcml.prettyPrint();
deleteNcml.then().assertThat().statusCode(OK.getStatusCode());
Response downloadNcmlShouldFail = UtilIT.downloadAuxFile(fileId, tag, version, apiToken);
downloadNcmlShouldFail.then().assertThat()
.statusCode(NOT_FOUND.getStatusCode());
UtilIT.makeSuperUser(username).then().assertThat().statusCode(OK.getStatusCode());
Response extractNcml = UtilIT.extractNcml(fileId, apiToken);
extractNcml.prettyPrint();
extractNcml.then().assertThat()
.statusCode(OK.getStatusCode());
Response downloadNcmlShouldWork = UtilIT.downloadAuxFile(fileId, tag, version, apiToken);
downloadNcmlShouldWork.then().assertThat()
.statusCode(OK.getStatusCode());
}
@Test
public void testNmclFromNetcdfErrorChecking() throws IOException {
Response createUser = UtilIT.createRandomUser();
createUser.then().assertThat().statusCode(OK.getStatusCode());
String apiToken = UtilIT.getApiTokenFromResponse(createUser);
String username = UtilIT.getUsernameFromResponse(createUser);
Response createUserRandom = UtilIT.createRandomUser();
createUserRandom.then().assertThat().statusCode(OK.getStatusCode());
String apiTokenRandom = UtilIT.getApiTokenFromResponse(createUserRandom);
String apiTokenNull = null;
Response createDataverseResponse = UtilIT.createRandomDataverse(apiToken);
createDataverseResponse.prettyPrint();
createDataverseResponse.then().assertThat()
.statusCode(CREATED.getStatusCode());
String dataverseAlias = UtilIT.getAliasFromResponse(createDataverseResponse);
Response createDataset = UtilIT.createRandomDatasetViaNativeApi(dataverseAlias, apiToken);
createDataset.prettyPrint();
createDataset.then().assertThat()
.statusCode(CREATED.getStatusCode());
Integer datasetId = UtilIT.getDatasetIdFromResponse(createDataset);
String datasetPid = UtilIT.getDatasetPersistentIdFromResponse(createDataset);
String pathToFile = "src/test/resources/netcdf/madis-raob";
Response uploadFile = UtilIT.uploadFileViaNative(datasetId.toString(), pathToFile, apiToken);
uploadFile.prettyPrint();
uploadFile.then().assertThat().statusCode(OK.getStatusCode());
long fileId = JsonPath.from(uploadFile.body().asString()).getLong("data.files[0].dataFile.id");
String tag = "NcML";
String version = "0.1";
Response downloadNcmlFail = UtilIT.downloadAuxFile(fileId, tag, version, apiTokenNull);
downloadNcmlFail.then().assertThat()
.statusCode(FORBIDDEN.getStatusCode());
Response downloadNcml = UtilIT.downloadAuxFile(fileId, tag, version, apiToken);
downloadNcml.then().assertThat()
.statusCode(OK.getStatusCode())
.contentType("text/xml; name=\"madis-raob.ncml_0.1.xml\";charset=UTF-8");
Response deleteNcml = UtilIT.deleteAuxFile(fileId, tag, version, apiToken);
deleteNcml.prettyPrint();
deleteNcml.then().assertThat().statusCode(OK.getStatusCode());
Response downloadNcmlShouldFail = UtilIT.downloadAuxFile(fileId, tag, version, apiToken);
downloadNcmlShouldFail.then().assertThat()
.statusCode(NOT_FOUND.getStatusCode());
Response extractNcmlFailRandomUser = UtilIT.extractNcml(fileId, apiTokenRandom);
extractNcmlFailRandomUser.prettyPrint();
extractNcmlFailRandomUser.then().assertThat()
.statusCode(FORBIDDEN.getStatusCode());
UtilIT.makeSuperUser(username).then().assertThat().statusCode(OK.getStatusCode());
Response extractNcml = UtilIT.extractNcml(fileId, apiToken);
extractNcml.prettyPrint();
extractNcml.then().assertThat()
.statusCode(OK.getStatusCode())
.body("data.result", CoreMatchers.equalTo(true));
Response downloadNcmlShouldWork = UtilIT.downloadAuxFile(fileId, tag, version, apiToken);
downloadNcmlShouldWork.then().assertThat()
.statusCode(OK.getStatusCode());
Response extractNcmlFailExistsAlready = UtilIT.extractNcml(fileId, apiToken);
extractNcmlFailExistsAlready.prettyPrint();
extractNcmlFailExistsAlready.then().assertThat()
.statusCode(OK.getStatusCode())
.body("data.result", CoreMatchers.equalTo(false));
Path pathToTxt = Paths.get(java.nio.file.Files.createTempDirectory(null) + File.separator + "file.txt");
String contentOfTxt = "Just a text file. Don't expect NcML out!";
java.nio.file.Files.write(pathToTxt, contentOfTxt.getBytes());
Response uploadFileTxt = UtilIT.uploadFileViaNative(datasetId.toString(), pathToTxt.toString(), apiToken);
uploadFileTxt.then().assertThat()
.statusCode(OK.getStatusCode())
.body("data.files[0].label", equalTo("file.txt"));
long fileIdTxt = JsonPath.from(uploadFileTxt.body().asString()).getLong("data.files[0].dataFile.id");
Response extractNcmlFailText = UtilIT.extractNcml(fileIdTxt, apiToken);
extractNcmlFailText.prettyPrint();
extractNcmlFailText.then().assertThat()
.statusCode(OK.getStatusCode())
.body("data.result", CoreMatchers.equalTo(false));
}
@Test
public void testExtraBoundingBoxFromNetcdf() throws IOException {
Response createUser = UtilIT.createRandomUser();
createUser.then().assertThat().statusCode(OK.getStatusCode());
String apiToken = UtilIT.getApiTokenFromResponse(createUser);
String username = UtilIT.getUsernameFromResponse(createUser);
Response createDataverseResponse = UtilIT.createRandomDataverse(apiToken);
createDataverseResponse.prettyPrint();
createDataverseResponse.then().assertThat()
.statusCode(CREATED.getStatusCode());
String dataverseAlias = UtilIT.getAliasFromResponse(createDataverseResponse);
Response setMetadataBlocks = UtilIT.setMetadataBlocks(dataverseAlias, Json.createArrayBuilder().add("citation").add("geospatial"), apiToken);
setMetadataBlocks.prettyPrint();
setMetadataBlocks.then().assertThat().statusCode(OK.getStatusCode());
Response createDataset = UtilIT.createRandomDatasetViaNativeApi(dataverseAlias, apiToken);
createDataset.prettyPrint();
createDataset.then().assertThat()
.statusCode(CREATED.getStatusCode());
Integer datasetId = UtilIT.getDatasetIdFromResponse(createDataset);
String datasetPid = UtilIT.getDatasetPersistentIdFromResponse(createDataset);
// From https://www.ncei.noaa.gov/data/international-comprehensive-ocean-atmosphere/v3/archive/nrt/ICOADS_R3.0.0_1662-10.nc
// via https://data.noaa.gov/onestop/collections/details/9bd5c743-0684-4e70-817a-ed977117f80c?f=temporalResolution:1%20Minute%20-%20%3C%201%20Hour;dataFormats:NETCDF
String pathToFile = "src/test/resources/netcdf/ICOADS_R3.0.0_1662-10.nc";
Response uploadFile = UtilIT.uploadFileViaNative(datasetId.toString(), pathToFile, apiToken);
uploadFile.prettyPrint();
uploadFile.then().assertThat().statusCode(OK.getStatusCode());
Response getJson = UtilIT.nativeGet(datasetId, apiToken);
getJson.prettyPrint();
getJson.then().assertThat()
.statusCode(OK.getStatusCode())
.body("data.latestVersion.metadataBlocks.geospatial.fields[0].value[0].westLongitude.value", equalTo("-16.320007"))
.body("data.latestVersion.metadataBlocks.geospatial.fields[0].value[0].eastLongitude.value", equalTo("-6.220001"))
.body("data.latestVersion.metadataBlocks.geospatial.fields[0].value[0].northLatitude.value", equalTo("49.62"))
.body("data.latestVersion.metadataBlocks.geospatial.fields[0].value[0].southLatitude.value", equalTo("41.8"));
}
}