Bioinformatics

In recent versions (can't say from exactly when), there seems to be an off-by-one error in dcc.DatePickerRange. I set max_date_allowed = datetime.today().date(), but in the calendar, yesterday is the maximum date allowed. I see it in my apps, and it is also present in the first example on the DatePickerRange documentation page.

E

Setup

Seen with latest code from git while preparing the 1.73 release on Linux, but applies to all platforms.

Expected behaviour

$ python run_tests.py test_PDB_StructureAlignment.py
Python version: 2.7.15 | packaged by conda-forge | (default, Jul 27 2018, 10:26:36) 
[GCC 4.8.2 20140120 (Red Hat 4.8.2-15)]
Operating system: posix linux2
test_PDB_StructureAlignment ... ok

_sparse_nanmean makes two copies of the data matrix and performs a set index operation on a sparse array. It could be much faster by not doing this things.

Noticed while reviewing #1890.

from numba import njit, prange
import numpy as np

@njit(parallel=True)
def nanmean_lowlevel(data, indices, indptr, shape):
    N, M = s

As reported by @jonalv , it can be confusing what is happening when if the globber pattern does not catch any files.

The suggestion is to:

• Log when the globber starts, with the pattern used
• Issue a warning if the globber doesn't match any files at all