juicer_tools for analyzing Hi-C data
0
0
Entering edit mode
7 months ago

Hi! is there anyone who know how to use juicer_tools for analyzing Hi-C data generated .hoc files Please let me know how i can use this i have faced an error $java -jar /home/data//miniconda3/pkgs/juicer-1.6-cuda_py310hbd92243_0/share/juicer-1.6-0/juicer_tools.jar arrowhead -c /home/data/H4K16ac/Hi-C/juicer1.6_compact-main/hg19.chrom.sizes -r 10000 -k KR -m 5000000 /home/data/H4K16ac/Hi-C/GSM3262956_D00_HiC_Rep1.hic /home/data/H4K16ac/Hi-C/GSM3262956_D00_HiC_Rep1_contact_domains i got an error related to GPU and my linux system havent support GPU is there any way to use this on CPU /usr/include/stdlib.h(570): error: attribute "__malloc__" does not take arguments

/usr/include/stdlib.h(799): error: attribute "__malloc__" does not take arguments

13 errors detected in the compilation of "/tmp/temp_JCuda_6890278305480480020.cu".

    at jcuda.utils.KernelLauncher.preparePtxFile(KernelLauncher.java:1135)
    at jcuda.utils.KernelLauncher.create(KernelLauncher.java:385)
    at jcuda.utils.KernelLauncher.create(KernelLauncher.java:321)
    at jcuda.utils.KernelLauncher.compile(KernelLauncher.java:270)
    at juicebox.tools.utils.juicer.hiccups.GPUController.<init>(GPUController.java:72)
    at juicebox.tools.clt.juicer.HiCCUPS.buildGPUController(HiCCUPS.java:578)
    at juicebox.tools.clt.juicer.HiCCUPS.runCoreCodeForHiCCUPS(HiCCUPS.java:505)
    at juicebox.tools.clt.juicer.HiCCUPS.access$200(HiCCUPS.java:158)
    at juicebox.tools.clt.juicer.HiCCUPS$1.run(HiCCUPS.java:434)
    at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
    at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
    at java.base/java.lang.Thread.run(Thread.java:1575)

GPU/CUDA Installation Not Detected Exiting HiCCUPS

Thank You

juicer_tools • 480 views
ADD COMMENT

Login before adding your answer.

Traffic: 4625 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6