fix：增加谱文件处理状态判断

jeecg-boot-base-core/src/main/java/org/jeecg/common/email/EmailServiceManager.java

@@ -1,16 +1,13 @@
 package org.jeecg.common.email;
 
-import cn.hutool.core.io.FileUtil;
 import cn.hutool.core.util.ArrayUtil;
 import cn.hutool.core.util.ObjectUtil;
+import cn.hutool.core.util.RandomUtil;
 import cn.hutool.core.util.StrUtil;
 import com.google.common.collect.Lists;
 import com.sun.mail.imap.IMAPStore;
 import com.sun.mail.smtp.SMTPAddressFailedException;
-import io.swagger.models.auth.In;
 import lombok.extern.slf4j.Slf4j;
-import org.apache.commons.io.Charsets;
-import org.apache.commons.io.FileUtils;
 import org.apache.commons.lang3.StringUtils;
 import org.jeecg.common.api.dto.message.MessageDTO;
 import org.jeecg.common.constant.RedisConstant;
@@ -21,7 +18,6 @@ import org.jeecg.common.exception.DownloadEmailException;
 import org.jeecg.common.properties.SpectrumPathProperties;
 import org.jeecg.common.properties.TaskProperties;
 import org.jeecg.common.util.DateUtils;
-import org.jeecg.common.util.Md5Util;
 import org.jeecg.common.util.RedisUtil;
 import org.jeecg.modules.base.entity.postgre.SysEmail;
 import org.jetbrains.annotations.NotNull;
@@ -36,6 +32,9 @@ import java.io.*;
 import java.net.InetSocketAddress;
 import java.net.Socket;
 import java.util.*;
+import java.util.concurrent.*;
+import java.util.concurrent.atomic.AtomicReference;
+import java.util.concurrent.locks.ReentrantLock;
 import java.util.stream.Collectors;
 
 /**
@@ -70,6 +69,8 @@ public class EmailServiceManager {
 
     private Object downloadEmlLocal = new Object();
 
+    private final ReentrantLock lock = new ReentrantLock();
+
     @NotNull
     public static EmailServiceManager getInstance(){
         return new EmailServiceManager();
@@ -609,6 +610,105 @@ public class EmailServiceManager {
         }
     }
 
+    /*public File downloadEmailToEmlDir(@NotNull Message message, Integer emailCounter, Integer batchesCounter) throws MessagingException, IOException {
+        AtomicReference<FileOutputStream> outputStream = new AtomicReference<>();
+        CompletableFuture<File> future = CompletableFuture.supplyAsync(() -> {
+            try {
+                lock.lock(); // 获取锁
+                // 执行需要获取锁才能进行的操作
+                // return executeWithLock(message, emailCounter, batchesCounter);
+                File file = executeWithLock(message, emailCounter, batchesCounter);
+                outputStream.set(new FileOutputStream(file));
+                a(outputStream,message);
+                return null;
+            } catch (MessagingException e) {
+                throw new RuntimeException(e);
+            } catch (FileNotFoundException e) {
+                throw new RuntimeException(e);
+            } catch (IOException e) {
+                throw new RuntimeException(e);
+            } finally {
+                // 如果成功拿到锁 释放锁
+                lock.unlock();
+            }
+        });
+
+        try {
+            return future.get(5, TimeUnit.SECONDS);
+            // return future.get(5, TimeUnit.SECONDS);// 等待任务执行，超过5秒则抛出TimeoutException
+        } catch (InterruptedException | ExecutionException | TimeoutException e) {
+            future.cancel(true); // 取消任务执行
+            if (ObjectUtil.isNotNull(outputStream) && ObjectUtil.isNotNull(outputStream.get()))
+                outputStream.get().close();
+            log.error("下载 eml 执行超时", e);
+            throw new RuntimeException("下载 eml 执行超时");
+        }
+    }*/
+    public File executeWithLock(Message message,Integer emailCounter,Integer batchesCounter) throws MessagingException {
+
+        String subject = "";
+        File emlFile = null;
+        String status = EmailLogManager.STATUS_SUCCESS;
+        Date receivedDate = null;
+        try {
+            // 获取锁 设置超时
+            //获取发件人
+            final String address = ((InternetAddress) message.getFrom()[0]).getAddress();
+            final String from = address.substring(0,address.indexOf(StringConstant.AT));
+            //获取主题
+            subject = MimeUtility.decodeText(message.getSubject());
+            if(subject.contains(StringConstant.SLASH)){
+                subject = StringUtils.replace(subject,StringConstant.SLASH,"");
+            }
+            if(subject.contains(StringConstant.COLON)){
+                subject = StringUtils.replace(subject,StringConstant.COLON,"");
+            }
+            receivedDate = message.getReceivedDate();
+            StringBuilder fileName = new StringBuilder();
+            fileName.append(from);
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append(subject);
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append(DateUtils.formatDate(new Date(),"YYMMdd"));
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append(DateUtils.formatDate(new Date(),"HHmmssSSS"));
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append("receive");
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append(DateUtils.formatDate(receivedDate,"YYMMdd"));
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append(DateUtils.formatDate(receivedDate,"HHmmssSSS"));
+            fileName.append(StringConstant.UNDER_LINE);
+            fileName.append(emailCounter);
+            fileName.append(SAVE_EML_SUFFIX);
+            final String rootPath = spectrumPathProperties.getRootPath();
+            final String emlPath = spectrumPathProperties.getEmlPath();
+            emlFile = new File(rootPath+emlPath+File.separator+fileName);
+            // Thread.sleep(6000l);
+            // try(FileOutputStream outputStream = new FileOutputStream(emlFile)) {
+            //     message.writeTo(outputStream);
+            // } catch (IOException e) {
+            //     throw new RuntimeException(e);
+            // }
+        } catch (MessagingException | IOException e) {
+            // 下载邮件失败 抛出自定义邮件下载异常
+            status = EmailLogManager.STATUS_ERROR;
+            String errorMsg = StrUtil.format("The email download failed, the subject of the email is {}, the reason is {}.", subject, e.getMessage());
+            log.error(errorMsg);
+            throw new DownloadEmailException(errorMsg);
+        }  catch (Exception e) {
+            log.error("",e);
+        } finally {
+            EmailLogEvent event = new EmailLogEvent(batchesCounter,Thread.currentThread().getId(),EmailLogManager.GS_TYPE_GET,status,EmailLogManager.GETIDEML,subject,DateUtils.formatDate(receivedDate,"yyyy-MM-dd HH:mm:ss:SSS"),
+                    (Objects.isNull(emlFile)?" ":emlFile.getAbsolutePath()));
+            EmailLogManager.getInstance().offer(Thread.currentThread().getId(),event);
+        }
+        return emlFile;
+    }
+
+    public void a(AtomicReference<FileOutputStream> outputStream, Message message) throws MessagingException, IOException {
+        message.writeTo(outputStream.get());
+    }
     /**
      * 删除邮件
      * @param message
@@ -622,7 +722,7 @@ public class EmailServiceManager {
             subject = MimeUtility.decodeText(message.getSubject());
             receivedDate = message.getReceivedDate();
             message.setFlag(Flags.Flag.DELETED,true);
-//            log.info("EmailServiceManager: Remove Email:{},receiveTime:{}",message.getSubject(), DateUtils.formatDate(message.getReceivedDate(),"yyyy-MM-dd HH:mm:ss"));
+            // log.info("EmailServiceManager: Remove Email:{},receiveTime:{}",message.getSubject(), DateUtils.formatDate(message.getReceivedDate(),"yyyy-MM-dd HH:mm:ss"));
         } catch (MessagingException | UnsupportedEncodingException e) {
             status = EmailLogManager.STATUS_ERROR;
             log.error("Email deletion failed, the subject of the email is :{}, the reason is :{}.",subject,e.getMessage());
@@ -648,6 +748,7 @@ public class EmailServiceManager {
             if(null != store){
                 store.close();
             }
+            log.info("EmailServiceManage资源关闭完成.");
 //            for(String messageId : messageIds){
 //                String key = RedisConstant.EMAIL_MSG_ID+StringConstant.COLON+messageId;
 //                redisUtil.del(key);
@@ -668,7 +769,7 @@ public class EmailServiceManager {
         try {
             String key = RedisConstant.EMAIL_MSG_ID+StringConstant.COLON+messageId;
             int numberKey = redisUtil.get(key) != null? (int) redisUtil.get(key):0;
-//            exist = redisUtil.hasKey(key);
+            // exist = redisUtil.hasKey(key);
             if(numberKey >= taskProperties.getForceDeletedNumber()){
                 exist = true;
                 log.info("Check: Remove Email:{},receiveTime:{}",message.getSubject(), DateUtils.formatDate(message.getReceivedDate(),"yyyy-MM-dd HH:mm:ss"));

jeecg-module-auto-process/src/main/java/org/jeecg/modules/AutoProcessManager.java

@@ -1,5 +1,6 @@
 package org.jeecg.modules;
 
+import cn.hutool.core.util.RandomUtil;
 import lombok.RequiredArgsConstructor;
 import lombok.extern.slf4j.Slf4j;
 import org.jeecg.common.constant.RedisConstant;
@@ -15,7 +16,6 @@ import org.jeecg.modules.spectrum.SpectrumServiceQuotes;
 import org.springframework.stereotype.Component;
 import org.springframework.util.CollectionUtils;
 
-import java.io.*;
 import java.util.*;
 import java.util.concurrent.TimeUnit;
 
@@ -158,7 +158,7 @@ public class AutoProcessManager{
                                     //如果这时邮箱线程里已有执行的线程则设置停止标记
                                     if(emailExecThreadMap.containsKey(email.getId())){
                                         EmailParsingActuator actuator = emailExecThreadMap.get(email.getId());
-                                        actuator.setStop(true);
+                                        actuator.setThreadSleep(true);
                                         actuator.setStopTime(new Date());
                                     }
                                     log.info("{}邮箱测试连接失败，emailMap删除此邮箱数据，emailExecThreadMap设置线程停止标记",email.getUsername());
@@ -235,7 +235,7 @@ public class AutoProcessManager{
                                         if(testFlag){
                                             if (emailExecThreadMap.containsKey(databaseEmail.getId())) {
                                                 EmailParsingActuator actuator = emailExecThreadMap.get(databaseEmail.getId());
-                                                actuator.setStop(false);
+                                                actuator.setThreadSleep(false);
                                                 log.info("{}邮箱重新加入监测队列",databaseEmail.getUsername());
                                             } else {
                                                 databaseEmail.setNewEmailFlag(true);

jeecg-module-auto-process/src/main/java/org/jeecg/modules/EmailParsingActuator.java

@@ -36,6 +36,8 @@ public class EmailParsingActuator extends Thread{
     @Setter @Getter
     private boolean isStop;
     @Setter @Getter
+    private boolean threadSleep;
+    @Setter @Getter
     private Date stopTime;
 
     public void init(EmailProperties emailProperties,SpectrumServiceQuotes spectrumServiceQuotes,
@@ -62,8 +64,17 @@ public class EmailParsingActuator extends Thread{
     @Override
     public void run() {
         for(;;){
-            if (isStop) {
             String nowDate = DateUtils.formatDate(new Date(), "yyyy-MM-dd HH:mm:ss");
+            if (threadSleep) {
+                log.info(nowDate + " " +this.emailProperties.getName()+" EmailParsingActuator is sleep!");
+                try {
+                    Thread.sleep(1000L);
+                } catch (InterruptedException e) {
+                    log.error("Thread sleep error");
+                }
+                continue;
+            }
+            if (isStop) {
                 log.info(nowDate + " " +this.emailProperties.getName()+" EmailParsingActuator is Stop!");
                 closeResource();
                 return;
@@ -80,13 +91,11 @@ public class EmailParsingActuator extends Thread{
                     //检验获取的邮件是否在之前删除失败列表中，若在直接调用邮件API删除，并且此次数组里元素也删除
                     for(int i=messages.length-1;i>=0;i--){
                         if (null == messages[i].getHeader("Message-ID")) {
-                            System.out.println("Message ID是空值信息！！！！！！！");
                             messages = ArrayUtils.remove(messages, i);
                             continue;
                         }
                         if (!messages[i].isExpunged()){
                             String messageId = ((MimeMessage) messages[i]).getMessageID();
-                            System.out.println("正常获取到的Message ID是："+messageId);
                             final boolean exist = emailServiceManager.check(messages[i],messageId);
                             messageIds.add(messageId);
                             if(exist){
@@ -106,15 +115,14 @@ public class EmailParsingActuator extends Thread{
                             poolExecutor.execute(spectrumParsingActuator);
                         }
                         taskLatch.await();
+                        log.info("EmailParsingActuator本次{}封邮件处理完成", messages.length);
                     }
                 }
-            } catch (MessagingException e) {
+            } catch (Exception e) {
-                System.out.println("捕获MessagingException！！！！！！！！");
+                log.error("EmailParsingActuator has exception: {}", e.getMessage());
+                log.info("Mail-Parsing线程池资源关闭...");
                 closeResource();
                 throw new RuntimeException(e);
-            } catch (Exception e) {
-                closeResource();
-                log.error(""+e);
             } finally {
                 //清除本批次邮件日志缓存
                 EmailLogManager.getInstance().clear();

jeecg-module-auto-process/src/main/java/org/jeecg/modules/service/impl/GardsSampleDataServiceImpl.java

@@ -84,7 +84,8 @@ public class GardsSampleDataServiceImpl extends ServiceImpl<GardsSampleDataMappe
         LambdaQueryWrapper<GardsSampleData> queryWrapper = new LambdaQueryWrapper<>();
         queryWrapper.eq(GardsSampleData::getInputFileName,inputFileName);
         final GardsSampleData sampleData = this.getOne(queryWrapper);
-        if(Objects.nonNull(sampleData) && !SampleStatus.COMPLETE.getValue().equals(sampleData.getStatus())){
+        if(Objects.nonNull(sampleData) && !SampleStatus.COMPLETE.getValue().equals(sampleData.getStatus())
+                && !SampleStatus.INTERACTIVE.getValue().equals(sampleData.getStatus())){
             this.baseMapper.updateStatus(status,inputFileName);
         }
     }

jeecg-module-auto-process/src/main/java/org/jeecg/modules/spectrum/AbstractSpectrumHandler.java

@@ -316,7 +316,7 @@ public abstract class AbstractSpectrumHandler extends AbstractChain {
                 ex.printStackTrace();
             }
         } else if(SpectrumSource.FROM_FILE_SOURCE.getSourceType().equals(spectrumSource) && (e instanceof FileRepeatException)){
-            this.spectrumFile.delete();
+            this.spectrumFile.delete(); // TODO 删除原始谱文件
         } else if (SpectrumSource.FORM_FILE_UNDEL.getSourceType().equals(spectrumSource) && !(e instanceof FileRepeatException)) {
             try {
                 if (isDateFormatErr) {