search

TheJacksonLaboratory / ChIA-PIPE

ChIA-PIPE: A fully automated pipeline for comprehensive ChIA-PET data analysis and visualization
MIT License
27 stars 12 forks source link

ERROR WHILE INSTALLATION OF CHIA-PIPE TOOLS #2

Open ag-abhishek opened 3 years ago

ag-abhishek commented 3 years ago

I am encountering the error. can you guide me to resolve this -

`trying to compile and link a JNI program detected JNI cpp flags : detected JNI linker flags : -L$(JAVA_HOME)/lib/amd64/server -ljvm make[2]: Entering directory '/tmp/Rjavareconf.w23yIf' gcc -I/mnt/raid/abhishek/software/testing_chia_pipe/ChIA-PIPE/R-3.2.1/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c conftest.c -o conftest.o **conftest.c:1:10: fatal error: jni.h: No such file or directory

include **

      ^~~~~~~

compilation terminated. /mnt/raid/abhishek/software/testing_chia_pipe/ChIA-PIPE/R-3.2.1/etc/Makeconf:134: recipe for target 'conftest.o' failed make[2]: *** [conftest.o] Error 1 make[2]: Leaving directory '/tmp/Rjavareconf.w23yIf' Unable to compile a JNI program

JAVA_HOME : /mnt/raid/abhishek/software/testing_chia_pipe/ChIA-PIPE/jre Java library path: JNI cpp flags : JNI linker flags : Updating Java configuration in /mnt/raid/abhishek/software/testing_chia_pipe/ChIA-PIPE/R-3.2.1 Done.

make[1]: Leaving directory '/mnt/raid/abhishek/software/testing_chia_pipe/ChIA-PIPE/R-3.2.1' ln: failed to create symbolic link 'R': File exists `

ahmedabbas81 commented 3 years ago

I also got the same problem. I am wondering if it is possible to list the dependencies needed (I may have most of them installed already) and give all the files needed for a test example (not only the fastq files). Thanks