These are chat archives for dereneaton/ipyrad

14th
Mar 2018
YAO Xin
@danielyao12
Mar 14 2018 12:19
Hi, Isaac and Deren, I try to run through the example in Advanced tutorial – CLI, but I even meet problems at first step(ipyrad -p params-data1.txt -s 12). The first one is that I got warning message:
/lustre/home/yaoxin/anaconda2/lib/python2.7/site-packages/h5py/init.py:36: FutureWarning: Conversion of the second argument of issubdtype from float to np.floating is deprecated. In future, it will be treated as np.float64 == np.dtype(float).type.
from ._conv import register_converters as _register_converters
Then, it's:

ipyrad [v.0.7.22]

Interactive assembly and analysis of RAD-seq data

A new version of ipyrad is available (v.0.7.23). To upgrade run:

conda install -c ipyrad ipyrad

Enabling debug mode


ipyrad [v.0.7.22]

Interactive assembly and analysis of RAD-seq data

New Assembly: data1
establishing parallel connection:

Encountered an unexpected error (see ./ipyrad_log.txt)
Error message is below -------------------------------
KeyboardInterrupt()

the ./ipyrad_log.txt has following words:

ipyrad [v.0.7.22]

Interactive assembly and analysis of RAD-seq data

Begin run: 2018-03-14 20:13
Using args {'preview': False, 'force': True, 'threads': 2, 'results': False, 'quiet': False, 'merge': None, 'ipcluster': N$
Platform info: ('Linux', 'smp02.local', '2.6.32-431.el6.x86_64', '#1 SMP Sun Nov 10 22:19:54 EST 2013', 'x86_64')2018-03-1$
2018-03-14 20:14:55,662 pid=102159 [assembly.py] ERROR KeyboardInterrupt()
2018-03-14 20:14:57,727 pid=102159 [assembly.py] INFO shutting down engines
2018-03-14 20:14:58,050 pid=102159 [assembly.py] INFO finished shutdown
2018-03-14 20:14:58,056 pid=102159 [init.py] INFO debugging turned off

So can you please have look about my problems when you have time? Thank you in advance.