R软件中一个Warning message如何解决: package not exist‘GEOquery’ is not available (for R version 3.3.1)

java - tomcat requested resource () is not available - Stack Overflow
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i know its a very common question as i find many questions relating to this in several forums, including SO. but i have not found a solution yet
my web.xml (located in WEB-INF)
&?xml version="1.0" encoding="UTF-8"?&
&web-app xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="/xml/ns/javaee" xmlns:web="/xml/ns/javaee/web-app_2_5.xsd" xsi:schemaLocation="/xml/ns/javaee /xml/ns/javaee/web-app_2_5.xsd" id="WebApp_ID" version="2.5"&
&display-name&SMSProjectNew&/display-name&
&welcome-file-list&
&welcome-file&index.html&/welcome-file&
&/welcome-file-list&
&description&&/description&
&display-name&ReceiveMessagesServlet&/display-name&
&servlet-name&ReceiveMessagesServlet&/servlet-name&
&servlet-class&com.sendreceive.ReceiveMessagesServlet&/servlet-class&
&/servlet&
&servlet-mapping&
&servlet-name&ReceiveMessagesServlet&/servlet-name&
&url-pattern&/ReceiveMessagesServlet&/url-pattern&
&/servlet-mapping&
&/web-app&
the html page index.html, located in WebContent folder
&!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd"&
&meta http-equiv="Content-Type" content="text/ charset=ISO-8859-1"&
&title&Insert title here&/title&
The application started successfully version 1:27
&form action="/ReceiveMessagesServlet" method="post"&
&input type="text" name="number"/&
&input type="text" name="message"/&
&input type="submit" name="submit"/&
finally the servlet, ReceiveMessagesServlet, located in src\com.sendreceive
package com.
import java.io.IOE
import javax.servlet.ServletE
import javax.servlet.http.HttpS
import javax.servlet.http.HttpServletR
import javax.servlet.http.HttpServletR
public class ReceiveMessagesServlet extends HttpServlet {
private static final long serialVersionUID = 1L;
public ReceiveMessagesServlet() {
// TODO Auto-generated constructor stub
protected void doGet(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException {
processRequest(request,response);
protected void doPost(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException {
processRequest(request,response);
protected void processRequest(HttpServletRequest request,
HttpServletResponse response) {
String responseMessage = request.getParameter("message");
String responseNumber = request.getParameter("number");
System.out.println(responseMessage+responseNumber);
i have installed the tomcat plugin in eclipse. when i right click on the project and then click on run the project on server. tomcat server starts in eclipse and the index.html page is shown..but when i enter some values in the fields and click submit..it gives the 404 error..i have been struggling from past 2 hours..kindly help..also..fyi, i am using this tutorial
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This question has been asked before and already has an answer. If those answers do not fully address your question, please .
You are getting 404 error because of the action="/ReceiveMessagesServlet", please remove the slash. Try with action="ReceiveMessagesServlet".
When you add a slash to URL pattern then the container will look for a web application deployed with name 'ReceiveMessagesServlet'.Since this not there you will receive 404 error.
When you deploy your application into servlet container, your URLs may be prefixed by the context path identifying your application among other applications in that container (i.e. /ReceiveMessagesServlet becomes /MyApp/ReceiveMessagesServlet).
Therefore you should take that possibility into account and modify your URLs accordingly, for example, with JSTL's &c:url&:
&form action="&c:url = value = '/ReceiveMessagesServlet' /&" method="post"&
Alternatively, without JSTL:
&form action="${pageContext.request.contextPath}/ReceiveMessagesServlet" method="post"&
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Errors in your servlet may cause Tomcat to mark it as unavailable as I got in my server log:
06/02/:43 org.apache.catalina.core.ApplicationContext log
INFO: Marking servlet Imager as unavailable 06/02/:43
org.apache.catalina.core.StandardWrapperValve invoke SEVERE: Allocate
exception for servlet Imager java.lang.ClassNotFoundException com.project.test.ImageThumber
You should look the log for reasons.
In my case a missing jar with some test classes.
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我尝试用R和Bioconductor的GEOquery分析基因库数据时遇到如下问题:& gds &- getGEO(&GDS3257&, destdir=&E:/Bioinformatics/lungcancer-bioinformatics/lung cancer/Data&)Using locally cached version of GDS3257 found here:E:/Bioinformatics/lungcancer-bioinformatics/lung cancer/Data/GDS3257.soft.gz & eset &- GDS2eSet(gds, do.log2=TRUE)Error in download.file(myurl, destfile, mode = mode, quiet = TRUE, method = getOption(&download.file.method.GEOquery&)) :
cannot open URL 'ftp://ftp.ncbi.nih.gov/pub/geo/DATA/annotation/platforms/GPL96.annot.gz'In addition: Warning message:In download.file(myurl, destfile, mode = mode, quiet = TRUE, method = getOption(&download.file.method.GEOquery&)) :
failed to create a data connection& eset = GDS2eSet(gds, do.log2 = TRUE)Using locally cached version of GPL96 found here:C:\DOCUME~1\ADMINI~1\LOCALS~1\Temp\RtmpgxratK/GPL96.annot.gz Error in read.table(con, sep = &\t&, header = FALSE, nrows = nseries) :
invalid 'nlines' argument之前在奥地利时也做同样工作,却没有这个问题。不知是否是因为windows XP系统?因为之前用的是win7,本人菜鸟,恳请高手指点!Thanks a lot!!!
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问题已解决,希望以后能与大家多交流bioinformatics方面的问题~~
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我也遇到同样的问题,请问你是怎么解决的?多谢!
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是网络权限问题,我去学校图书馆就可以了
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今天我也突然遇到这个问题,在你的帮助下解决了。后来又研究了一下发现外网无法用ftp协议访问,但是却可以用http协议访问,如果Geoquery这个包的制作者能把默认的ftp改成http我们不管在哪都可以使用了。看来您是R语言的前辈,以后要多多向你学习。
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我也遇到这个问题了,和我猜想的差不多,是不是只能换网络?不能在R上面改一下么?
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请问要如何设置网络权限呢
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关于丁香园python - InsecurePlatformWarning: A true SSLContext object is not available. This prevents urllib3 from configuring SSL appropriately - Stack Overflow
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Tried to perform REST GET through python requests with the following code and I got error.
Code snip:
import requests
header = {'Authorization': 'Bearer...'}
url = az_base_url + az_subscription_id + '/resourcegroups/Default-Networking/resources?' + az_api_version
r = requests.get(url, headers=header)
/usr/local/lib/python2.7/dist-packages/requests/packages/urllib3/util/ssl_.py:79:
InsecurePlatformWarning: A true SSLContext object is not available.
This prevents urllib3 from configuring SSL appropriately and may cause certain SSL connections to fail.
For more information, see https://urllib3.readthedocs.org/en/latest/security.html#insecureplatformwarning.
InsecurePlatformWarning
My python version is 2.7.3. I tried to install urllib3 and requests[security] as some other thread suggests, I still got the same error.
Wonder if anyone can provide some tips?
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This question has been asked before and already has an answer. If those answers do not fully address your question, please .
, however requests allow us to skip a few steps:
You only need to install the security
(thanks @admdrew for pointing it out)
$ pip install requests[security]
or, install them directly:
$ pip install pyopenssl ndg-httpsclient pyasn1
If you're on ubuntu, you may run into trouble installing
pyopenssl, you'll need these dependencies:
$ apt-get install libffi-dev libssl-dev
7,68821126
If you are not able to upgrade your Python version to 2.7.9, and want to suppress warnings,
you can downgrade your 'requests' version to 2.5.3:
sudo pip install requests==2.5.3
About version:
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