Question

我正在尝试从Java运行Linux命令。该命令从命令行本身运行完美，但从Java不运行。命令行中的命令是

curl -H "Content-Type: text/plain" -d "$(printf '#Genes\nPIK3C2A\nPTEN\nUNC5B')" -X POST --url https://reactome.org/AnalysisService/identifiers/projection/

来自Java的命令是

 String $notifyMsg="\"$(printf '#Genes\nPIK3C2A\nPTEN\nUNC5B')\"";
 String $reactome = "https://reactome.org/AnalysisService/identifiers/projection/";
 String $notifyTitle= "\"Content-Type: text/plain\"";
 String $command = "curl" + " " + "-H"+ " " +  $notifyTitle + " "+ "-d " + $notifyMsg +" "+ "-X" + " " + "POST" + " " +  " " + "--url" +" " + $reactome;
 System.out.println("Command is: " + $command);

      Process p=Runtime.getRuntime().exec($command);
      p.waitFor();
      System.out.println("Run Result " + p.exitValue() )

我为了获得这样的输出而感到沮丧

{"summary":{"token":"MjAxODAxMjMxNjQyMDZfNjcy","projection":true,"interactors":false,"type":"OVERREPRESENTATION","sampleName":"Genes","text":true},"expression":{"columnNames":[]},"identifiersNotFound":0,"pathwaysFound":51,"pathways":

但我得到0。谁能告诉我什么可能是错的？

Answer 1

引用和逃避是你的敌人。最好的办法是完全避免它们。使用一种方法启动该过程，该方法允许您将各个参数作为单独的字符串传递，而不必将它们拆分。

Process p = new ProcessBuilder(
    "curl",
    "-H", "Content-Type: text/plain",
    "-d", "#Genes\nPIK3C2A\nPTEN\nUNC5B",
    "-X", "POST",
    "--url", "https://reactome.org/AnalysisService/identifiers/projection/"
).start();

您的代码调用exitValue()，它会为您提供流程的退出代码。要阅读其输出，请从input stream。

中读取

InputStream s = p.getInputStream();

Answer 2

p.exitValue()会为您提供流程的退出代码。它返回0，因为卷曲成功，退出代码为0。

我会考虑调查HttpClient library以便在Java中本地执行这些操作。

Answer 3

这对我有用：

String notifyMsg = "#Genes\nPIK3C2A\nPTEN\nUNC5B";
String reactome = "https://reactome.org/AnalysisService/identifiers/projection/";
String notifyTitle = "Content-Type: text/plain";

Process p = new ProcessBuilder("curl", "-H", notifyTitle, "-d", notifyMsg, "-X", "POST", "--url", reactome).start();
p.waitFor();
try (Scanner scanner = new Scanner(new InputStreamReader(p.getInputStream()))) {
    while (scanner.hasNextLine()) {
        System.out.println(scanner.nextLine());
    }
}
System.out.println("Run Result " + p.exitValue());

不要手动连接命令行，使用ProcessBuilder的vararg构造函数
您的Content-Type说明和-d
$(printf是shell解释的东西，但Java却没有。只需在Java字符串文字中使用\n即可获得新行。

我还添加了一些代码来读取输出。

来自java的Linux Shell命令

3 个答案: