rdpstaff / EcoFunPrimer

primer design pipeline
GNU General Public License v3.0
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build.xml:86 build failed #4

Open aiqubo opened 4 years ago

aiqubo commented 4 years ago

“”“download-ivy: [mkdir] Created dir: /root/.ant/lib [get] Getting: http://repo2.maven.org/maven2/org/apache/ivy/ivy/2.1.0-rc2/ivy-2.1.0-rc2.jar [get] To: /root/.ant/lib/ivy.jar [get] Error getting http://repo2.maven.org/maven2/org/apache/ivy/ivy/2.1.0-rc2/ivy-2.1.0-rc2.jar to /root/.ant/lib/ivy.jar

BUILD FAILED /home/aiqubo/MetaFunPrimer/MetaFunPrimer/RDPTools/PrimerDesign/build.xml:86: java.net.UnknownHostException: repo2.maven.org at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:184) at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392) at java.net.Socket.connect(Socket.java:607) at java.net.Socket.connect(Socket.java:556) at sun.net.NetworkClient.doConnect(NetworkClient.java:180) at sun.net.www.http.HttpClient.openServer(HttpClient.java:463) at sun.net.www.http.HttpClient.openServer(HttpClient.java:558) at sun.net.www.http.HttpClient.(HttpClient.java:242) at sun.net.www.http.HttpClient.New(HttpClient.java:339) at sun.net.www.http.HttpClient.New(HttpClient.java:357) at sun.net.www.protocol.http.HttpURLConnection.getNewHttpClient(HttpURLConnection.java:1226) at sun.net.www.protocol.http.HttpURLConnection.plainConnect0(HttpURLConnection.java:1162) at sun.net.www.protocol.http.HttpURLConnection.plainConnect(HttpURLConnection.java:1056) at sun.net.www.protocol.http.HttpURLConnection.connect(HttpURLConnection.java:990) at org.apache.tools.ant.taskdefs.Get$GetThread.openConnection(Get.java:712) at org.apache.tools.ant.taskdefs.Get$GetThread.get(Get.java:626) at org.apache.tools.ant.taskdefs.Get$GetThread.run(Get.java:616) ”“” java version "1.7.0_251"

Can you help us with this?

wangqion commented 4 years ago

Hi there,

Thank you for contacting us. It seems like the url of one of the third party jar files was changed recently. We are working on fixing the bug and push the update to github, hopefully in the next few days. We are sorry for the inconvenient and I will let you know when it's ready to use.

Qiong

On Tue, Apr 7, 2020 at 6:54 AM aiqubo notifications@github.com wrote:

“”“download-ivy: [mkdir] Created dir: /root/.ant/lib [get] Getting: http://repo2.maven.org/maven2/org/apache/ivy/ivy/2.1.0-rc2/ivy-2.1.0-rc2.jar [get] To: /root/.ant/lib/ivy.jar [get] Error getting http://repo2.maven.org/maven2/org/apache/ivy/ivy/2.1.0-rc2/ivy-2.1.0-rc2.jar to /root/.ant/lib/ivy.jar

BUILD FAILED /home/aiqubo/MetaFunPrimer/MetaFunPrimer/RDPTools/PrimerDesign/build.xml:86: java.net.UnknownHostException: repo2.maven.org at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:184) at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392) at java.net.Socket.connect(Socket.java:607) at java.net.Socket.connect(Socket.java:556) at sun.net.NetworkClient.doConnect(NetworkClient.java:180) at sun.net.www.http.HttpClient.openServer(HttpClient.java:463) at sun.net.www.http.HttpClient.openServer(HttpClient.java:558) at sun.net.www.http.HttpClient.(HttpClient.java:242) at sun.net.www.http.HttpClient.New(HttpClient.java:339) at sun.net.www.http.HttpClient.New(HttpClient.java:357) at sun.net.www.protocol.http.HttpURLConnection.getNewHttpClient(HttpURLConnection.java:1226) at sun.net.www.protocol.http.HttpURLConnection.plainConnect0(HttpURLConnection.java:1162) at sun.net.www.protocol.http.HttpURLConnection.plainConnect(HttpURLConnection.java:1056) at sun.net.www.protocol.http.HttpURLConnection.connect(HttpURLConnection.java:990) at org.apache.tools.ant.taskdefs.Get$GetThread.openConnection(Get.java:712) at org.apache.tools.ant.taskdefs.Get$GetThread.get(Get.java:626) at org.apache.tools.ant.taskdefs.Get$GetThread.run(Get.java:616) ”“” Can you help us with this?

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-- Qiong

gunturus commented 4 years ago

@aiqubo I made the changes to build script can you try compiling.

aiqubo commented 4 years ago

@aiqubo I made the changes to build script can you try compiling.

thanks,build successful now but another error has occurred in centOS 7.5. Can you tell me how to fix it?

""" [aiqubo@iZ8vbhjgwhc1nm2b1b1kwwZ PrimerDesign]$ make gcc -shared -fPIC -o libPrimer3.so edu_msu_cme_rdp_primerdesign_utils_Primer3Wrapper.c thal.o oligotm.o -I/Library/Java/JavaVirtualMachines/jdk1.7.0_45.jdk/Contents/Home/include -I/Library/Java/JavaVirtualMachines/jdk1.7.0_45.jdk/Contents/Home/include/darwin -I. -lm In file included from edu_msu_cme_rdp_primerdesign_utils_Primer3Wrapper.c:1:0: edu_msu_cme_rdp_primerdesign_utils_Primer3Wrapper.h:2:17: fatal error: jni.h: No such file or directory

include

             ^

compilation terminated. make: *** [libPrimer3.so] Error 1 """