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Unpacking /mnt/gaiagpfs/users/homedirs/snarayanasamy/repositories/drep
Running setup.py egg_info for package from file:///mnt/gaiagpfs/users/homedirs/snarayanasamy/repositories/drep
Installing collected packages: drep
Running setup.py install for drep
changing mode of build/scripts-3.3/dRep from 644 to 755
changing mode of /home/users/snarayanasamy/.local/bin/dRep to 755
Successfully installed drep
Cleaning up...
I have python3.3.2 loaded onto my environment. Then I attempt the test: $ python3 test_suite.py
To get:
Traceback (most recent call last):
File "tests/test_suite.py", line 14, in <module>
from drep import argumentParser
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/argumentParser.py", line 17, in <module>
from drep.controller import Controller
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/controller.py", line 25, in <module>
from drep.WorkDirectory import WorkDirectory
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/WorkDirectory.py", line 5, in <module>
import pandas as pd
ImportError: No module named 'pandas'
I also try to call the script directly: $ bin/dRep
And get this:
Traceback (most recent call last):
File "bin/dRep", line 19, in <module>
import drep.argumentParser
File "/home/users/snarayanasamy/.local/lib/python3.3/site-packages/drep/__init__.py", line 5, in <module>
from Bio import SeqIO
ImportError: No module named 'Bio'
Is there something I am missing here?
I look forward to your reply.
Cheers,
Shaman
Update
I proceeded to install all the dependencies via pip. These include:
pandas, matplotlib, seaborn.
I then arrive to this error when trying to run the test:
Traceback (most recent call last):
File "tests/test_suite.py", line 215, in <module>
test_cluster()
File "tests/test_suite.py", line 207, in test_cluster
verifyCluster.run()
File "tests/test_suite.py", line 147, in run
self.functional_test_1()
File "tests/test_suite.py", line 163, in functional_test_1
controller.parseArguments(args)
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/controller.py", line 143, in parseArguments
self.cluster_operation(**vars(args))
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/controller.py", line 50, in cluster_operation
drep.d_cluster.d_cluster_wrapper(kwargs['work_directory'],**kwargs)
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/d_cluster.py", line 284, in d_cluster_wrapper
Bdb, data_folder, kwargs = parse_arguments(workDirectory, **kwargs)
File "/home/users/snarayanasamy/.local/lib/python3.4/site-packages/drep/d_cluster.py", line 316, in parse_arguments
.format(prog))
NameError: name 'prog' is not defined
The text was updated successfully, but these errors were encountered:
Thank you for your interest in the program, and thank you for contacting me about its issues- I really appreciate it.
I'm glad you were able to find out about the missing dependencies- I just pushed an update that (in addition to fixing the 'prog' problem) will also install those dependencies automatically.
The second error your referring to is a bug in the program- the easiest way to fix it would be to download the new version of 'drep' that I just made, and then running:
pip install . --upgrade
To upgrade the installation. After upgrading you should see 'version 0.3.5' when running the help, as opposed to 'version 0.3.4'
Dear authors,
I am attempting to install Drep on my cluster. However, I am facing some issues.
Here is what I did:
It looks like it goes fine:
I have python3.3.2 loaded onto my environment. Then I attempt the test:
$ python3 test_suite.py
To get:
I also try to call the script directly:
$ bin/dRep
And get this:
Is there something I am missing here?
I look forward to your reply.
Cheers,
Shaman
Update
I proceeded to install all the dependencies via pip. These include:
pandas, matplotlib, seaborn.
I then arrive to this error when trying to run the test:
The text was updated successfully, but these errors were encountered: