ivirshup

travis_fold:start:worker_info
Worker information
hostname: 4c70b58b-1d92-4cdb-8dc0-547cc4c52f41@1.production-1-worker-org-gce-xd4f
version: v6.2.0 https://github.com/travis-ci/worker/tree/5e5476e01646095f48eec13196fdb3faf8f5cbf7
instance: travis-job-1c73a386-5e3e-4462-9423-877511d99d2d travis-ci-garnet-trusty-1512502259-986baf0 (via amqp)
startup: 6.583484338s
travis_fold:end:worker_info
travis_fold:start:system_info
Build system information
Build language: python

ivirshup

import scanpy as sc
import numpy as np
import pandas as pd
from scipy import sparse
from umap import UMAP

from itertools import repeat, chain

# Define functions

ivirshup

import scanpy as sc
import numpy as np
import pandas as pd
from scipy import sparse
from umap import UMAP
from itertools import repeat, chain

def preprocess(adata):
    # adata.var["mito"] = adata.var["gene_symbols"].str.startswith("MT-")
    # sc.pp.calculate_qc_metrics(adata, qc_vars=["mito"], inplace=True)

ivirshup

import scanpy as sc
from anndata import AnnData
from functools import partial, partialmethod, wraps
from inspect import isfunction, getmembers

class Mapper(object):
    def __init__(self, parent, mod):
        self._parent = parent
        self._mod = mod
        self._modfuncs = getmembers(mod, isfunction)

ivirshup

from abc import ABC
from collections.abc import MutableMapping


class AlignedMapping(MutableMapping, ABC):

    @property
    @abstractmethod
    def isview(self):
        pass

ivirshup

ivirshup

---------------------------------------------------------------------------
NotImplementedError                       Traceback (most recent call last)
/usr/local/lib/python3.7/site-packages/numba/errors.py in new_error_context(fmt_, *args, **kwargs)
    661     try:
--> 662         yield
    663     except NumbaError as e:

/usr/local/lib/python3.7/site-packages/numba/lowering.py in lower_block(self, block)
    257                                    loc=self.loc, errcls_=defaulterrcls):
--> 258                 self.lower_inst(inst)

ivirshup

Python 3.7.4 (default, Sep  7 2019, 18:27:02) 
Type 'copyright', 'credits' or 'license' for more information
IPython 7.8.0 -- An enhanced Interactive Python. Type '?' for help.

In [1]: import h5py                                                                                

In [2]: import numpy as np                                                                         

In [3]: indices = np.sort(np.random.choice(int(1e7), int(1e4), replace=False))                     

ivirshup

Python 3.7.4 (default, Sep  7 2019, 18:27:02) 
Type 'copyright', 'credits' or 'license' for more information
IPython 7.8.0 -- An enhanced Interactive Python. Type '?' for help.

In [1]: import h5py                                                                                

In [2]: import numpy as np                                                                         

In [3]: indices = np.sort(np.random.choice(int(1e7), int(1e4), replace=False))                     

ivirshup

--- src
+++ dst
@@ -2612,10 +2612,20 @@
                     )  # /Load
                   id=
                     'C',  # str
                 )  # /Name
             )  # /Assign
+            Return(
+              value=