Teichlab / bracer

BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data
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Cannot run the docker image #30

Closed NicolasHipp closed 5 years ago

NicolasHipp commented 5 years ago

hi everyone, First , I wish you a Happy New year !!! I would like to test Bracer with the Docker Image, but I'm stuck at the start of the tutorial.

pip3 install -r /bracer/requirements.txt

$ /bracer/bracer/test
-sh: 174: /bracer/bracer/test: not found
$ /bracer/bracer test
Traceback (most recent call last):
  File "/bracer/bracer", line 17, in <module>
    from bracerlib.launcher import launch
  File "/bracer/bracerlib/launcher.py", line 2, in <module>
    import matplotlib as mpl
ImportError: No module named matplotlib

I add the path of matplolib,and the bracer path in my PATH, but nothing change /usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games:/home/nhipp/.local/lib/python3.5/site-packages/:/home/nhipp/.local/lib/python3.5/site-packages/matplotlib:/bracer

Maybe my brain is still in holliday but I cannot solve the problem. Does-anybody have an idea !

EDIT: I used a ssh interactive Docker job submission, that why the command is not complete (in regard of the tutorial) nicolas

NicolasHipp commented 5 years ago

Find it, It come from my docker environment, sorry