Closed radaniba closed 9 years ago
Ok I downgraded to Scipy 0.12 and it worked
Any dependencies specs somewhere in the doc ?
Hi,
This is an error from scipy. See this answer: http://stackoverflow.com/questions/32011231/undefined-symbol-in-scipys-lapack-library
-fidel
On Thu, Aug 20, 2015 at 11:04 PM, Radhouane Aniba notifications@github.com wrote:
Hello
I am using the latest version of deepTools and I am running through this error while running the {compute, correct}GCBias pair :
Traceback (most recent call last): File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/bin/computeGCBias", line 10, in
from scipy.stats import poisson File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/stats/init.py", line 321, in from .stats import File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/stats/stats.py", line 180, in import scipy.special as special File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/special/init.py", line 603, in File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/special/basic.py", line 18, infrom .basic import from . import orthogonal File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/special/orthogonal.py", line 101, in from scipy import linalg File "/genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/linalg/init.py", line 188, in from ._decomp_update import * File "scipy/linalg/_decomp_update.pyx", line 1, in init scipy.linalg._decomp_update (scipy/linalg/_decomp_update.c:35875) ImportError: /genesis/extscratch/shahlab/pipelines/virtual_environments/chip-seq/lib/python2.7/site-packages/scipy/linalg/cythonlapack.so: undefined symbol: zlacn2 Any idea on what can cause this ?
— Reply to this email directly or view it on GitHub https://github.com/fidelram/deepTools/issues/96.
Fidel Ramirez
Hi,
The error was from scipy, not from deepTools. Something was wrong with your installation.
I have tested deepTools with the latest scipy version 0.15. In the setup.py says that deepTools requires scipy >= 0.10
Fidel Ramírez
On 21 Aug 2015, at 00:27, Radhouane Aniba notifications@github.com wrote:
Ok I downgraded to Scipy 0.12 and it worked
Any dependencies specs somewhere in the doc ?
— Reply to this email directly or view it on GitHub.
Hi @fidelram ! Thanks yes I saw this and fixed my isue by downgrading scipy and it worked just fine. Thank you
Hello
I am using the latest version of deepTools and I am running through this error while running the {compute, correct}GCBias pair :
Any idea on what can cause this ?
ps : am using scipy 0.16.0