Question: Problem installing multibreak-SV
0
gravatar for cristian
22 months ago by
cristian220
cristian220 wrote:

Hi,

I am trying to install multibreak-sv: https://github.com/raphael-group/multibreak-sv/blob/master/doc/MultiBreakSV-Manual.txt

I have tried the following:

    git clone https://github.com/raphael-group/multibreak-sv.git
    cd multibreak-sv
    ./install

Cloning into 'multibreak-sv'...
Removing previous builds
Installing MultiBreak-SV...
Buildfile: /Users/...../multibreak-sv/build.xml

clean:
   [delete] Deleting directory /Users/......./multibreak-sv/bin

init:
    [mkdir] Created dir: /Users/....t/multibreak-sv/build
    [mkdir] Created dir: /Users/......t/multibreak-sv/lib
    [mkdir] Created dir: /Users/...../multibreak-sv/bin

compileMBSV:
    [javac] Compiling 11 source files to /Users/..../multibreak-sv/build
     [exec] Traceback (most recent call last):
     [exec]   File "setup.py", line 5, in <module>
     [exec]     from Cython.Build import cythonize
     [exec] ImportError: No module named Cython.Build
Command to add lib/ directory to your PATH and PYTHONPATH environment variables.
execute this in the terminal or add to you ~/.bashrc file.

export PATH=$PATH:/Users/......t/multibreak-sv/lib/
export PYTHONPATH=$PYTHONPATH:/Users/......../multibreak-sv/lib/

Installation complete.  Check for errors.

BUILD FAILED
/Users/........./multibreak-sv/build.xml:37: exec returned: 1

Total time: 1 second

I realise that there must be something wrong with Cython.Build, but I don't know what.

Thanks for your help.

Best,

C.

pacbio install multibreak-sv sv • 545 views
ADD COMMENTlink modified 21 months ago by loonreg0 • written 22 months ago by cristian220
0
gravatar for loonreg
21 months ago by
loonreg0
loonreg0 wrote:

If it's the issue of Cython, you can type pip install cython to install it. Also, please make sure that you've installed numpy. If not, you can install it by the command pip install numpy

ADD COMMENTlink written 21 months ago by loonreg0
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