Name: pybold
Owner: Biological Informatics CoE @ Agriculture and Agri-Food Canada
Owner: Biological Informatics CoE @ Agriculture and Agri-Food Canada
Description: Python bindings for Barcode of Life's Restful services
Created: 2015-11-17 02:12:46.0
Updated: 2016-03-13 02:36:25.0
Pushed: 2016-03-13 02:38:29.0
Homepage: null
Size: 434
Language: Python
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Python bindings for Barcode of Life's Restful WebServices.
These python modules provide object oriented methods to query various endpoints from the Barcode of Life web services.
The latest release can be installed using pip as follows:
pip install pybold
Alternatively, the latest modifications in the source can be installed from github using pip
pip install -e git+https://github.com/aafc-mbb/pybold#egg=pybold
Generally, you will start with one of the client classes to query the web services and return a set of objects that match the search criteria.
rt pybold.specimen
ns_list = ['Achaeorhizomycetes', 'Arthoniomycetes']
pybold.specimen.SpecimensClient()
imen_list = sc.get(taxons='|'.join(taxons_list))
specimen in specimen_list:
int specimen.process_id
Currently, there are 3 clients: SpecimensClient, SequencesClient, and TracefilesClient. Each client has a get method that will return a list of objects (Specimen, Sequence, Tracefile) corresponding to the search criteria.
As a convenience, the Specimen, Sequence, and Tracefile objects permit looking up the corresponding Specimen, Sequence, or Tracefile objects.
rt pybold.tracefile
ns_list = ['Achaeorhizomycetes', 'Arthoniomycetes']
pybold.tracefile.TracefilesClient()
efile_list = tc.get(taxons='|'.join(taxons_list))
tracefile in tracefile_list:
int tracefile.sequence.seq
Python bindings for Barcode of Life's Restful WebServices.
These python modules provide object oriented methods to query various endpoints from the Barcode of Life web services.
The latest release can be installed using pip as follows:
pip install pybold
Alternatively, the latest modifications in the source can be installed from github using pip
pip install -e git+https://github.com/aafc-mbb/pybold#egg=pybold
Generally, you will start with one of the client classes to query the web services and return a set of objects that match the search criteria.
rt pybold.specimen
ns_list = ['Achaeorhizomycetes', 'Arthoniomycetes']
pybold.specimen.SpecimensClient()
imen_list = sc.get(taxons='|'.join(taxons_list))
specimen in specimen_list:
int specimen.process_id
Currently, there are 3 clients: SpecimensClient, SequencesClient, and TracefilesClient. Each client has a get method that will return a list of objects (Specimen, Sequence, Tracefile) corresponding to the search criteria.
As a convenience, the Specimen, Sequence, and Tracefile objects permit looking up the corresponding Specimen, Sequence, or Tracefile objects.
rt pybold.tracefile
ns_list = ['Achaeorhizomycetes', 'Arthoniomycetes']
pybold.tracefile.TracefilesClient()
efile_list = tc.get(taxons='|'.join(taxons_list))
tracefile in tracefile_list:
int tracefile.sequence.seq