Rest controllers for the Laboratory information management system. See also https://gist.github.com/james-d/ab72b487b7b12bb7a3bc

InvestigatorController.java

package edu.marshall.genomics.lims.web;

import java.util.List;
import javax.inject.Inject;

import org.springframework.web.bind.annotation.RequestBody;
import org.springframework.web.bind.annotation.RequestMapping;
import org.springframework.web.bind.annotation.RequestMethod;
import org.springframework.web.bind.annotation.RestController;

import edu.marshall.genomics.lims.entities.Investigator;
import edu.marshall.genomics.lims.service.LimsService;

@RestController
@RequestMapping("/investigators")
public class InvestigatorController {
	
	private LimsService limsService ;

	public LimsService getLimsService() {
		return limsService;
	}

	@Inject
	public void setLimsService(LimsService limsService) {
		this.limsService = limsService;
	}
		
	@RequestMapping(method=RequestMethod.GET, produces="application/json")
	public List<Investigator> getInvestigators() {
		return limsService.getAllInvestigators() ;
	}
	
	@RequestMapping(method=RequestMethod.POST, consumes="application/json", produces="application/json")
	public void addInvestigators(@RequestBody List<Investigator> investigators) {
		limsService.addInvestigators(investigators);
	}
	
	@RequestMapping(method=RequestMethod.PUT, consumes="application/json")
	public void updateInvestigator(@RequestBody Investigator investigator) {
		limsService.updateInvestigator(investigator);
	}
	
}

ProjectController.java

package edu.marshall.genomics.lims.web;

import java.util.List;
import java.util.stream.Collectors;

import javax.inject.Inject;

import org.springframework.web.bind.annotation.PathVariable;
import org.springframework.web.bind.annotation.RequestBody;
import org.springframework.web.bind.annotation.RequestMapping;
import org.springframework.web.bind.annotation.RequestMethod;
import org.springframework.web.bind.annotation.RestController;

import edu.marshall.genomics.lims.entities.Investigator;
import edu.marshall.genomics.lims.entities.Project;
import edu.marshall.genomics.lims.service.LimsService;

@RestController
@RequestMapping("/projects")
public class ProjectController {
	private LimsService limsService ;

	public LimsService getLimsService() {
		return limsService;
	}

	@Inject
	public void setLimsService(LimsService limsService) {
		this.limsService = limsService;
	}
	
	@RequestMapping(method=RequestMethod.GET, produces="application/json")
	public List<Project> getAllProjects() {
		return limsService.getAllProjects() ;
	}
	
	@RequestMapping(value="/{investigatorId}", method=RequestMethod.GET, produces="application/json")
	public List<Project> getProjectsByinvestigatorId(
			@PathVariable("investigatorId") int investigatorId
			) {
		Investigator investigator = limsService.getInvestigatorById(investigatorId);
		return limsService.getProjectsByInvestigator(investigator);
	}
	
	@RequestMapping(method=RequestMethod.POST, consumes="application/json")
	public List<Integer> addProjects(@RequestBody List<Project> projects) {
		limsService.addProjects(projects);
		return projects.stream().map(Project::getId).collect(Collectors.toList());
	}
	
	@RequestMapping(method=RequestMethod.PUT, consumes="application/json")
	public void updateProject(@RequestBody Project project) {
		limsService.updateProject(project);
	}
}

SampleController.java

package edu.marshall.genomics.lims.web;

import java.util.ArrayList;
import java.util.List;
import java.util.stream.Collectors;

import javax.inject.Inject;

import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import org.springframework.web.bind.annotation.PathVariable;
import org.springframework.web.bind.annotation.RequestBody;
import org.springframework.web.bind.annotation.RequestMapping;
import org.springframework.web.bind.annotation.RequestMethod;
import org.springframework.web.bind.annotation.RestController;

import edu.marshall.genomics.lims.entities.Project;
import edu.marshall.genomics.lims.entities.Sample;
import edu.marshall.genomics.lims.service.LimsService;

@RestController
@RequestMapping("/samples")
public class SampleController {
	private LimsService limsService ;
	
	private Logger logger = LoggerFactory.getLogger(getClass());

	public LimsService getLimsService() {
		return limsService;
	}

	@Inject
	public void setLimsService(LimsService limsService) {
		this.limsService = limsService;
	}
	
	@RequestMapping(method=RequestMethod.GET, value="/{projectId}", produces="application/json")
	public List<Sample> getSamplesByProject(@PathVariable("projectId") int projectId) {
		Project project = limsService.getProjectById(projectId);
		return limsService.getSamplesByProject(project);
	}
	
	@RequestMapping(method=RequestMethod.POST, consumes="application/json")
	public List<Integer> addSamples(@RequestBody ArrayList<Sample> samples) {
		System.out.println("adding "+samples);
		logger.trace("adding "+samples);
		limsService.addSamples(samples);
		return samples.stream().map(Sample::getId).collect(Collectors.toList());
	}
	
	@RequestMapping(method=RequestMethod.PUT, consumes="application/json")
	public void updateSample(@RequestBody Sample sample) {
		limsService.updateSample(sample);
	}
	
}