From 1e77a7f7b3d2463cdf780f2e2f0527566d32fe0c Mon Sep 17 00:00:00 2001
From: Alessandro Frigeri <alessandro.frigeri@inaf.it>
Date: Fri, 3 May 2019 08:23:14 +0200
Subject: [PATCH] Scaffolding the module
---
MANIFEST.in | 2 +
README.md | 8 ++
example1.ipynb => examples/example1.ipynb | 0
moondb/__init__.py | 2 +
moondb/__pycache__/__init__.cpython-37.pyc | Bin 0 -> 176 bytes
moondb/__pycache__/core.cpython-37.pyc | Bin 0 -> 6333 bytes
moondb/__pycache__/helpers.cpython-37.pyc | Bin 0 -> 3628 bytes
moondb.py => moondb/core.py | 130 ---------------------
moondb/helpers.py | 128 ++++++++++++++++++++
setup.py | 21 ++++
tests/__init__.py | 0
tests/context.py | 5 +
tests/test_moondb.py | 8 ++
13 files changed, 174 insertions(+), 130 deletions(-)
create mode 100644 MANIFEST.in
rename example1.ipynb => examples/example1.ipynb (100%)
create mode 100644 moondb/__init__.py
create mode 100644 moondb/__pycache__/__init__.cpython-37.pyc
create mode 100644 moondb/__pycache__/core.cpython-37.pyc
create mode 100644 moondb/__pycache__/helpers.cpython-37.pyc
rename moondb.py => moondb/core.py (56%)
mode change 100755 => 100644
create mode 100644 moondb/helpers.py
create mode 100644 setup.py
create mode 100644 tests/__init__.py
create mode 100644 tests/context.py
create mode 100644 tests/test_moondb.py
diff --git a/MANIFEST.in b/MANIFEST.in
new file mode 100644
index 0000000..93cc7e9
--- /dev/null
+++ b/MANIFEST.in
@@ -0,0 +1,2 @@
+include README.md
+include examples/*
diff --git a/README.md b/README.md
index 09fecd3..6cfc524 100644
--- a/README.md
+++ b/README.md
@@ -4,6 +4,14 @@ MoonDB is a NASA-funded quality-controlled data system that will preserve, digit
PyMoonDB is a python client to the Application Program Interface made available by the MoonDB project.
+# Installation
+Within the directory where setup.py is placed, type:
+pip install -e .
+
+To use (with caution), simply do::
+
+ >>> import funniest
+ >>> print funniest.joke()
diff --git a/example1.ipynb b/examples/example1.ipynb
similarity index 100%
rename from example1.ipynb
rename to examples/example1.ipynb
diff --git a/moondb/__init__.py b/moondb/__init__.py
new file mode 100644
index 0000000..c445064
--- /dev/null
+++ b/moondb/__init__.py
@@ -0,0 +1,2 @@
+from .core import *
+from .helpers import *
diff --git a/moondb/__pycache__/__init__.cpython-37.pyc b/moondb/__pycache__/__init__.cpython-37.pyc
new file mode 100644
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diff --git a/moondb.py b/moondb/core.py
old mode 100755
new mode 100644
similarity index 56%
rename from moondb.py
rename to moondb/core.py
index a1b7aff..a5a5a83
--- a/moondb.py
+++ b/moondb/core.py
@@ -88,13 +88,11 @@ class AnalysisMethod:
return self.name
-
class AnalyisMethod:
def __init__(self,name):
self.name = name
-
def _url(path):
print(urllib.parse.quote(path))
return "http://api.moondb.org" + urllib.parse.quote(path)
@@ -125,55 +123,6 @@ def _get_resp(path):
return count,r['result']
-def get_specimen(sc=None,mn=None,ln=None,sty=None,ste=None):
- '''
- Get specimen by:
- - specimen code - sc
- - mission name - mn
- - landmark name - ln
- - speciment type - sty
- - sampling technique - ste
- '''
- sp_list = []
- if sc:
- for s in sc:
- count,spec = _get_resp('/specimen/'+s)
- sp_list.extend(spec)
- if mn:
- for n in mn:
- count,spec = _get_resp('/specimenlist/mission/'+n)
- sp_list.extend(spec)
-
- if ln:
- for n in ln:
- count,spec = _get_resp('/specimenlist/mission/'+n)
- sp_list.extend(spec)
-
- if sty:
- for st in sty:
- count,spec = _get_resp('/specimenlist/mission/'+st)
- sp_list.extend(spec)
-
- if ste:
- for st in ste:
- count,spec = _get_resp('/specimenlist/mission/'+st)
- sp_list.extend(spec)
-
- from collections import namedtuple
-
- sp_obj_list = []
-
- for s in sp_list:
- s_obj = namedtuple("Specimen", s.keys())(*s.values())
- sp_obj_list.append(s_obj)
-
- return sp_obj_list
-
-
-
-
-
-
def _json_object_hook(d):
return namedtuple('X', d.keys())(*d.values())
@@ -181,85 +130,6 @@ def json2obj(data):
return json.loads(data, object_hook=_json_object_hook)
-
-def get_missions():
- missions = []
- resp = requests.get(_url('/authorities/missions/'))
- _check_resp(resp)
- for m_item in resp.json()['results']:
- missions.append( Mission(m_item['name'] ))
- return missions
-
-## Controlled Vocabularies
-
-def get_specimentypes():
- st_list = []
- count,st = _get_resp('/cv/specimentypes')
- for s in st:
- stobj = SpecimenType(s['name'])
- st_list.append(stobj)
- return st_list
-
-def get_samplingtechniques():
- st_list = []
- count,st = _get_resp('/cv/samplingtechniques')
- for s in st:
- stobj = SamplingTechnique(s['name'])
- st_list.append(stobj)
- return st_list
-
-def get_analyzedmaterials():
- st_list = []
- count,st = _get_resp('/cv/analyzedmaterials')
- for s in st:
- stobj = AnalyzedMaterial(s['name'])
- st_list.append(stobj)
- return st_list
-
-def get_analytes():
- analytes = []
- count,an = _get_resp('/cv/analyzedmaterials')
- for a in an:
- analytes.append( Analyte(m_item['name'] ))
- return analytes
-
-def get_analysismethods():
- am_list = []
- count,am = _get_resp('/cv/analysismethods')
- for a in am:
- aobj = AnalysisMethod(s['name'])
- am_list.append(aobj)
- return am_list
-
-def get_landmark():
- pass
-
-def get_samplingtechnique():
- pass
-
-
-class Filter:
- def __init__(self):
- self.mission = []
- self.landmark = []
- self.specimenType = []
- self.samplingTechnique = []
- self.analyzedMaterial = []
- self.analyte = []
- self.analysisMethod = []
- def _toJSON(self):
- return json.dumps(self, default=lambda o: o.__dict__,sort_keys=True,separators=(",", ":"))
-
- def get_results(self):
- resp = requests.get(_url('/data/'+self._toJSON() ))
- res_list = []
-
- for r in resp.json()['results']:
- rd = dict(r)
- res_list.append(rd)
- return res_list
-
-
if __name__ == "__main__":
m = get_missions()
f = Filter()
diff --git a/moondb/helpers.py b/moondb/helpers.py
new file mode 100644
index 0000000..ea3a2d8
--- /dev/null
+++ b/moondb/helpers.py
@@ -0,0 +1,128 @@
+#!/usr/bin/python3
+#
+# (c) 2019 Alessandro Frigeri, Istituto Nazionale di Astrofisica
+#
+# MoonDB Python module
+
+def get_specimen(sc=None,mn=None,ln=None,sty=None,ste=None):
+ '''
+ Get specimen by:
+ - specimen code - sc
+ - mission name - mn
+ - landmark name - ln
+ - speciment type - sty
+ - sampling technique - ste
+ '''
+ sp_list = []
+ if sc:
+ for s in sc:
+ count,spec = _get_resp('/specimen/'+s)
+ sp_list.extend(spec)
+ if mn:
+ for n in mn:
+ count,spec = _get_resp('/specimenlist/mission/'+n)
+ sp_list.extend(spec)
+
+ if ln:
+ for n in ln:
+ count,spec = _get_resp('/specimenlist/mission/'+n)
+ sp_list.extend(spec)
+
+ if sty:
+ for st in sty:
+ count,spec = _get_resp('/specimenlist/mission/'+st)
+ sp_list.extend(spec)
+
+ if ste:
+ for st in ste:
+ count,spec = _get_resp('/specimenlist/mission/'+st)
+ sp_list.extend(spec)
+
+ from collections import namedtuple
+
+ sp_obj_list = []
+
+ for s in sp_list:
+ s_obj = namedtuple("Specimen", s.keys())(*s.values())
+ sp_obj_list.append(s_obj)
+
+ return sp_obj_list
+
+
+def get_missions():
+ missions = []
+ resp = requests.get(_url('/authorities/missions/'))
+ _check_resp(resp)
+ for m_item in resp.json()['results']:
+ missions.append( Mission(m_item['name'] ))
+ return missions
+
+## Controlled Vocabularies
+
+def get_specimentypes():
+ st_list = []
+ count,st = _get_resp('/cv/specimentypes')
+ for s in st:
+ stobj = SpecimenType(s['name'])
+ st_list.append(stobj)
+ return st_list
+
+def get_samplingtechniques():
+ st_list = []
+ count,st = _get_resp('/cv/samplingtechniques')
+ for s in st:
+ stobj = SamplingTechnique(s['name'])
+ st_list.append(stobj)
+ return st_list
+
+def get_analyzedmaterials():
+ st_list = []
+ count,st = _get_resp('/cv/analyzedmaterials')
+ for s in st:
+ stobj = AnalyzedMaterial(s['name'])
+ st_list.append(stobj)
+ return st_list
+
+def get_analytes():
+ analytes = []
+ count,an = _get_resp('/cv/analyzedmaterials')
+ for a in an:
+ analytes.append( Analyte(m_item['name'] ))
+ return analytes
+
+def get_analysismethods():
+ am_list = []
+ count,am = _get_resp('/cv/analysismethods')
+ for a in am:
+ aobj = AnalysisMethod(s['name'])
+ am_list.append(aobj)
+ return am_list
+
+def get_landmark():
+ pass
+
+def get_samplingtechnique():
+ pass
+
+
+
+class Filter:
+ def __init__(self):
+ self.mission = []
+ self.landmark = []
+ self.specimenType = []
+ self.samplingTechnique = []
+ self.analyzedMaterial = []
+ self.analyte = []
+ self.analysisMethod = []
+ def _toJSON(self):
+ return json.dumps(self, default=lambda o: o.__dict__,sort_keys=True,separators=(",", ":"))
+
+ def get_results(self):
+ resp = requests.get(_url('/data/'+self._toJSON() ))
+ res_list = []
+
+ for r in resp.json()['results']:
+ rd = dict(r)
+ res_list.append(rd)
+ return res_list
diff --git a/setup.py b/setup.py
new file mode 100644
index 0000000..3e6292c
--- /dev/null
+++ b/setup.py
@@ -0,0 +1,21 @@
+from setuptools import setup
+
+def readme():
+ with open('README.md') as f:
+ return f.read()
+
+
+setup(name='moondb',
+ version='0.1',
+ description='Accessing the MoonDB lunar sample database',
+ url='https://www.ict.inaf.it/gitlab/alessandro.frigeri/python-moondb',
+ author='Alessandro Frigeri',
+ author_email='Alessandro.Frigeri@inaf.it',
+ license='MIT',
+ packages=['moondb'],
+ install_requires=[
+ 'markdown',
+ 'requests',
+ 'urllib3'
+ ],
+ zip_safe=False)
diff --git a/tests/__init__.py b/tests/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/tests/context.py b/tests/context.py
new file mode 100644
index 0000000..ec28a17
--- /dev/null
+++ b/tests/context.py
@@ -0,0 +1,5 @@
+import os
+import sys
+sys.path.insert(0, os.path.abspath(os.path.join(os.path.dirname(__file__), '..')))
+
+import sample
diff --git a/tests/test_moondb.py b/tests/test_moondb.py
new file mode 100644
index 0000000..7fadc53
--- /dev/null
+++ b/tests/test_moondb.py
@@ -0,0 +1,8 @@
+from unittest import TestCase
+
+import moondb
+
+class TestMoonDB(TestCase):
+ def test_is_string(self):
+ s = funniest.joke()
+ self.assertTrue(isinstance(s, basestring))
--
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