[macmanes@br018 ~]$ conda create -n albacore-2.3.1 python=3.6
-bash: conda: command not found
[macmanes@br018 ~]$ module load anaconda
[macmanes@br018 ~]$ conda create -n albacore-2.3.1 python=3.6
Fetching package metadata .........
Solving package specifications: .
Package plan for installation in environment /home/macmanes/.conda/envs/albacore-2.3.1:
The following NEW packages will be INSTALLED:
certifi: 2016.2.28-py36_0
openssl: 1.0.2l-0
pip: 9.0.1-py36_1
python: 3.6.2-0
readline: 6.2-2
setuptools: 36.4.0-py36_1
sqlite: 3.13.0-0
tk: 8.5.18-0
wheel: 0.29.0-py36_0
xz: 5.2.3-0
zlib: 1.2.11-0
Proceed ([y]/n)? y
python-3.6.2-0 100% |##############################################################################################################| Time: 0:00:00 22.90 MB/s
certifi-2016.2 100% |##############################################################################################################| Time: 0:00:00 18.66 MB/s
wheel-0.29.0-p 100% |##############################################################################################################| Time: 0:00:00 14.88 MB/s
setuptools-36. 100% |##############################################################################################################| Time: 0:00:00 19.72 MB/s
pip-9.0.1-py36 100% |##############################################################################################################| Time: 0:00:00 16.44 MB/s
#
# To activate this environment, use:
# > source activate albacore-2.3.1
#
# To deactivate this environment, use:
# > source deactivate albacore-2.3.1
#
[macmanes@br018 ~]$ source activate albacore-2.3.1
(albacore-2.3.1) [macmanes@br018 ~]$ pip3 install ont_albacore-2.3.1-cp35-cp35m-manylinux1_x86_64.whl --user
(albacore-2.3.1) [macmanes@br018 ~]$ read_fast5_basecaller.py
RuntimeError: module compiled against API version 0xc but this version of numpy is 0xa
Traceback (most recent call last):
File "/home/macmanes/.local/bin/read_fast5_basecaller.py", line 69, in <module>
from albacore.input_utils import list_input_files
File "/home/macmanes/.local/lib/python3.5/site-packages/albacore/input_utils.py", line 7, in <module>
from albacore import log_utils
File "/home/macmanes/.local/lib/python3.5/site-packages/albacore/log_utils.py", line 5, in <module>
from albacore.pipeline_core import get_debug_level
SystemError: initialization of pipeline_core raised unreported exception
Last active
June 28, 2018 11:24
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error installing Albacore on Bridges
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