version 2.0 initial commit:

- rename module from dvidtools -> dvid
- refactor get_skeletons & locs_to_id (previously get_body_id
  and get_multiple_bodyids)
- rename set_param() -> setup()

Author: schlegelp

README.md

@@ -3,10 +3,10 @@
 # dvidtools
 Python tools to fetch data from [DVID](https://github.com/janelia-flyem/dvid) servers.
 
-Find the documentation [here](https://dvidtools.readthedocs.io)
+Find the documentation [here](https://dvidtools.readthedocs.io).
 
-If you want to query a neuPrint server, check out [neuprint-python](https://github.com/schlegelp/neuprint-python)
-instead.
+Want to query a neuPrint server instead? Check out
+[neuprint-python](https://github.com/connectome-neuprint/neuprint-python) instead.
 
 ## What can `dvidtools` do for you?
 
@@ -22,7 +22,7 @@ instead.
 
 ## Install
 
-Make sure you have [Python 3](https://www.python.org),
+Make sure you have [Python 3](https://www.python.org) (3.6 or later),
 [pip](https://pip.pypa.io/en/stable/installing/) and
 [git](https://git-scm.com) installed. Then run this in terminal:
 
@@ -48,4 +48,4 @@ pip install scikit-learn
 ```
 
 ## Examples
-Please see the [documentation](https://dvidtools.readthedocs.io) for examples.
+Please see the [documentation](https://dvidtools.readthedocs.io) for examples.

docs/conf.py

@@ -27,9 +27,9 @@
 author = 'Philipp Schlegel'
 
 # The short X.Y version
-version = '0.1.10'
+version = '0.2.0'
 # The full version, including alpha/beta/rc tags
-release = '0.1.10'
+release = '0.2.0'
 
 
 # -- General configuration ---------------------------------------------------

docs/src/api.rst

@@ -6,7 +6,7 @@ API Reference
 Reading/Writing Data
 ++++++++++++++++++++
 
-.. currentmodule:: dvidtools.fetch
+.. currentmodule:: dvid.fetch
 
 .. autosummary::
     :toctree: _autosummary
@@ -24,19 +24,20 @@ Reading/Writing Data
     get_connectivity
     get_labels_in_area
     get_last_mod
-    get_multiple_bodyids
     get_n_synapses
     get_neuron
     get_roi
     get_segmentation_info
-    get_skeleton
+    get_skeletons
     get_synapses
     get_user_bookmarks
+    setup
+    locs_to_ids
 
 Tools
 +++++
 
-.. currentmodule:: dvidtools.tip
+.. currentmodule:: dvid.tip
 
 .. autosummary::
     :toctree: _autosummary
@@ -46,7 +47,7 @@ Tools
 Utility
 +++++++
 
-.. currentmodule:: dvidtools.utils
+.. currentmodule:: dvid.utils
 
 .. autosummary::
     :toctree: _autosummary
@@ -57,5 +58,3 @@ Utility
     parse_swc_str
     reroot_skeleton
     save_swc
-
-

dvidtools/__init__.py renamed to dvid/__init__.py

@@ -1,8 +1,8 @@
 # This code is part of dvid-tools (https://github.com/flyconnectome/dvid_tools)
 # and is released under GNU GPL3
 
-__version__ = (0, 1, 10)
-__verstr__ = "0.1.10"
+__version__ = (0, 2, 0)
+__verstr__ = "0.2.0"
 
 from .fetch import *
 from .tip import *

dvidtools/config.py renamed to dvid/config.py

@@ -2,12 +2,11 @@
 # and is released under GNU GPL3
 
 import struct
-import os
-
 import numpy as np
 
+
 def decode_sparsevol(b, format='rles'):
-    """ Decode sparsevol binary mesh format.
+    """Decode sparsevol binary mesh format.
 
     Parameters
     ----------
@@ -30,7 +29,7 @@ def decode_sparsevol(b, format='rles'):
         # First get the header
         header = {k: v for k, v in zip(['start_byte', 'n_dims', 'run_dims',
                                         'reserved', 'n_blocks', 'n_spans'],
-                                        struct.unpack('bbbbii', b[:12]))}
+                                       struct.unpack('bbbbii', b[:12]))}
         coords = []
         for i in range(header['n_spans']):
             offset = 12 + (i * 16)
@@ -45,4 +44,4 @@ def decode_sparsevol(b, format='rles'):
     elif format == 'blocks':
         raise ValueError('Format "blocks" not yet implemented.')
     else:
-        raise ValueError('Unknown format "{}"'.format(form))
+        raise ValueError('Unknown format "{}"'.format(format))